annotate test-data/test_1.pheno.json @ 1:891283e0ee89 draft default tip

"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
author bgruening
date Thu, 05 May 2022 20:27:17 +0000
parents d67642a21a1d
children
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0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
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1 [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
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2 {
1
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bgruening
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diff changeset
3 "geneSymbol": "ABCG2",
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
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4 "chr": "chr4",
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5 "phased": true,
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6 "callSource": "MATCHER",
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7 "uncalledHaplotypes": [
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8 "rs2231142 reference (G)",
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bgruening
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9 "rs2231142 variant (T)"
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10 ],
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11 "messages": [],
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12 "relatedDrugs": [
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13 {
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14 "name": "rosuvastatin",
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
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15 "guidelineId": "RxNorm:301542"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
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16 }
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17 ],
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18 "matcherDiplotypes": [
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19 {
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20 "allele1": {
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bgruening
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21 "gene": "ABCG2",
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22 "name": "Unknown",
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bgruening
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23 "function": "Unassigned function",
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24 "reference": false
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25 },
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26 "allele2": {
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bgruening
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27 "gene": "ABCG2",
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bgruening
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28 "name": "Unknown",
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
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29 "function": "Unassigned function",
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bgruening
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30 "reference": false
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bgruening
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31 },
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bgruening
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32 "gene": "ABCG2",
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bgruening
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33 "phenotypes": [
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bgruening
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34 "No Result"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
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35 ],
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bgruening
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36 "variant": null,
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bgruening
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37 "lookupKey": [
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38 "No Result"
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39 ],
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bgruening
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40 "label": "Unknown/Unknown"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
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41 }
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
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42 ],
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bgruening
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43 "diplotypes": [
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44 {
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bgruening
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45 "allele1": {
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bgruening
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46 "gene": "ABCG2",
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47 "name": "Unknown",
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48 "function": "Unassigned function",
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49 "reference": false
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50 },
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51 "allele2": {
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52 "gene": "ABCG2",
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53 "name": "Unknown",
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54 "function": "Unassigned function",
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55 "reference": false
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56 },
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57 "gene": "ABCG2",
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bgruening
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58 "phenotypes": [
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bgruening
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59 "No Result"
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60 ],
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61 "variant": null,
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62 "lookupKey": [
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63 "No Result"
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64 ],
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65 "label": "Unknown/Unknown"
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66 }
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67 ],
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bgruening
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68 "variants": [
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69 {
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70 "gene": "ABCG2",
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71 "chromosome": "chr4",
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72 "position": 88131171,
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73 "dbSnpId": "rs2231142",
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74 "call": null,
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75 "alleles": [
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76 "rs2231142 variant (T)"
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77 ],
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78 "phased": false,
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79 "wildtypeAllele": "G",
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80 "mismatch": false,
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81 "warnings": []
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82 }
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83 ],
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84 "variantsOfInterest": [],
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85 "highlightedVariants": []
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86 },
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87 {
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88 "geneSymbol": "CACNA1S",
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89 "chr": "chr1",
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90 "phased": true,
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91 "callSource": "MATCHER",
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bgruening
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92 "uncalledHaplotypes": [],
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165 "Uncertain Susceptibility"
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172 }
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180 "call": "C|C",
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182 "c.3257G\u003eA"
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184 "phased": true,
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233 },
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243 }
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258 },
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260 "phenotypes": [
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261 "ivacaftor non-responsive in CF patients"
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264 "lookupKey": [
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265 "ivacaftor non-responsive in CF patients"
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267 "label": "No CPIC variants found"
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268 }
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270 "variants": [
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271 {
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275 "dbSnpId": "rs397508256",
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276 "call": "G|G",
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bgruening
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1080 ],
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1094 ],
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1099 },
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1188 "*3"
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1196 "gene": "CYP2B6",
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1197 "chromosome": "chr19",
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1199 "dbSnpId": "rs2279343",
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1200 "call": "A|A",
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1209 "*26",
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1214 ],
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1228 ],
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1270 ],
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1283 "*19"
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1284 ],
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1353 "*23"
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1359 },
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1367 "*24"
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1368 ],
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1373 },
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1376 "chromosome": "chr19",
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diff changeset
1378 "dbSnpId": null,
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bgruening
parents:
diff changeset
1379 "call": "A|A",
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bgruening
parents:
diff changeset
1380 "alleles": [
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bgruening
parents:
diff changeset
1381 "*25"
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bgruening
parents:
diff changeset
1382 ],
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bgruening
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diff changeset
1383 "phased": true,
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diff changeset
1384 "wildtypeAllele": "A",
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parents: 0
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1385 "mismatch": false,
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bgruening
parents: 0
diff changeset
1386 "warnings": []
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bgruening
parents:
diff changeset
1387 },
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bgruening
parents:
diff changeset
1388 {
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bgruening
parents:
diff changeset
1389 "gene": "CYP2B6",
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parents:
diff changeset
1390 "chromosome": "chr19",
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bgruening
parents:
diff changeset
1391 "position": 41016810,
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bgruening
parents:
diff changeset
1392 "dbSnpId": "rs3211371",
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bgruening
parents:
diff changeset
1393 "call": "C|C",
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bgruening
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diff changeset
1394 "alleles": [
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bgruening
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diff changeset
1395 "*5",
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bgruening
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diff changeset
1396 "*7",
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bgruening
parents:
diff changeset
1397 "*33",
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bgruening
parents:
diff changeset
1398 "*34"
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bgruening
parents:
diff changeset
1399 ],
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bgruening
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diff changeset
1400 "phased": true,
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bgruening
parents:
diff changeset
1401 "wildtypeAllele": "C",
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bgruening
parents: 0
diff changeset
1402 "mismatch": false,
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bgruening
parents: 0
diff changeset
1403 "warnings": []
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bgruening
parents:
diff changeset
1404 }
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bgruening
parents:
diff changeset
1405 ],
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bgruening
parents:
diff changeset
1406 "variantsOfInterest": [],
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bgruening
parents:
diff changeset
1407 "highlightedVariants": []
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bgruening
parents:
diff changeset
1408 },
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bgruening
parents:
diff changeset
1409 {
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bgruening
parents:
diff changeset
1410 "geneSymbol": "CYP2C19",
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bgruening
parents:
diff changeset
1411 "chr": "chr10",
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bgruening
parents:
diff changeset
1412 "phased": true,
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bgruening
parents:
diff changeset
1413 "callSource": "MATCHER",
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bgruening
parents:
diff changeset
1414 "uncalledHaplotypes": [],
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bgruening
parents:
diff changeset
1415 "messages": [],
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bgruening
parents:
diff changeset
1416 "relatedDrugs": [
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bgruening
parents:
diff changeset
1417 {
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bgruening
parents:
diff changeset
1418 "name": "amitriptyline",
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bgruening
parents:
diff changeset
1419 "guidelineId": "RxNorm:704"
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bgruening
parents:
diff changeset
1420 },
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bgruening
parents:
diff changeset
1421 {
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bgruening
parents:
diff changeset
1422 "name": "citalopram",
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bgruening
parents:
diff changeset
1423 "guidelineId": "RxNorm:2556"
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bgruening
parents:
diff changeset
1424 },
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bgruening
parents:
diff changeset
1425 {
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bgruening
parents:
diff changeset
1426 "name": "clomipramine",
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bgruening
parents:
diff changeset
1427 "guidelineId": "RxNorm:2597"
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bgruening
parents:
diff changeset
1428 },
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bgruening
parents:
diff changeset
1429 {
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bgruening
parents:
diff changeset
1430 "name": "clopidogrel",
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bgruening
parents:
diff changeset
1431 "guidelineId": "RxNorm:32968"
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bgruening
parents:
diff changeset
1432 },
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bgruening
parents:
diff changeset
1433 {
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bgruening
parents:
diff changeset
1434 "name": "dexlansoprazole",
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bgruening
parents:
diff changeset
1435 "guidelineId": "RxNorm:816346"
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bgruening
parents:
diff changeset
1436 },
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bgruening
parents:
diff changeset
1437 {
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bgruening
parents:
diff changeset
1438 "name": "doxepin",
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bgruening
parents:
diff changeset
1439 "guidelineId": "RxNorm:3638"
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bgruening
parents:
diff changeset
1440 },
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bgruening
parents:
diff changeset
1441 {
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bgruening
parents:
diff changeset
1442 "name": "escitalopram",
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bgruening
parents:
diff changeset
1443 "guidelineId": "RxNorm:321988"
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bgruening
parents:
diff changeset
1444 },
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bgruening
parents:
diff changeset
1445 {
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bgruening
parents:
diff changeset
1446 "name": "imipramine",
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bgruening
parents:
diff changeset
1447 "guidelineId": "RxNorm:5691"
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bgruening
parents:
diff changeset
1448 },
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bgruening
parents:
diff changeset
1449 {
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bgruening
parents:
diff changeset
1450 "name": "lansoprazole",
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bgruening
parents:
diff changeset
1451 "guidelineId": "RxNorm:17128"
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bgruening
parents:
diff changeset
1452 },
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bgruening
parents:
diff changeset
1453 {
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bgruening
parents:
diff changeset
1454 "name": "omeprazole",
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bgruening
parents:
diff changeset
1455 "guidelineId": "RxNorm:7646"
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bgruening
parents:
diff changeset
1456 },
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bgruening
parents:
diff changeset
1457 {
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bgruening
parents:
diff changeset
1458 "name": "pantoprazole",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1459 "guidelineId": "RxNorm:40790"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1460 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1461 {
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bgruening
parents:
diff changeset
1462 "name": "sertraline",
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bgruening
parents:
diff changeset
1463 "guidelineId": "RxNorm:36437"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1464 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1465 {
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bgruening
parents:
diff changeset
1466 "name": "trimipramine",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1467 "guidelineId": "RxNorm:10834"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1468 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1469 {
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bgruening
parents:
diff changeset
1470 "name": "voriconazole",
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1471 "guidelineId": "RxNorm:121243"
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1472 }
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1473 ],
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1474 "matcherDiplotypes": [
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1475 {
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1477 "gene": "CYP2C19",
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1478 "name": "*38",
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1479 "function": "Normal function",
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1480 "reference": true
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1481 },
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1487 },
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1490 "Normal Metabolizer"
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1491 ],
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1492 "variant": null,
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1493 "lookupKey": [
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1494 "Normal Metabolizer"
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1496 "label": "*38/*38"
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1497 }
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1498 ],
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1500 {
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1504 "function": "Normal function",
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1505 "reference": true
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1506 },
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1507 "allele2": {
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1510 "function": "Normal function",
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1511 "reference": true
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bgruening
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1512 },
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1513 "gene": "CYP2C19",
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1514 "phenotypes": [
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1515 "Normal Metabolizer"
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1516 ],
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1517 "variant": null,
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1518 "lookupKey": [
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1519 "Normal Metabolizer"
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1520 ],
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1521 "label": "*38/*38"
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1522 }
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1523 ],
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1524 "variants": [
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1525 {
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1527 "chromosome": "chr10",
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1528 "position": 94761900,
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1529 "dbSnpId": "rs12248560",
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bgruening
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1530 "call": "C|C",
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1531 "alleles": [
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1532 "*4",
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1533 "*17"
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1534 ],
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1535 "phased": true,
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1536 "wildtypeAllele": "C",
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1537 "mismatch": false,
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1538 "warnings": []
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1539 },
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1540 {
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1541 "gene": "CYP2C19",
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1542 "chromosome": "chr10",
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1544 "dbSnpId": "rs28399504",
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1545 "call": "A|A",
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1546 "alleles": [
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1547 "*4"
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1548 ],
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1549 "phased": true,
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1550 "wildtypeAllele": "A",
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1551 "mismatch": false,
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1552 "warnings": []
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1553 },
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bgruening
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1554 {
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1555 "gene": "CYP2C19",
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1556 "chromosome": "chr10",
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1558 "dbSnpId": "rs367543002",
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1559 "call": "C|C",
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1560 "alleles": [
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bgruening
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1561 "*34"
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bgruening
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1562 ],
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1648 "*30"
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1649 ],
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1782 },
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1790 "*22"
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1791 ],
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1796 },
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1804 "*33"
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1805 ],
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1810 },
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1813 "chromosome": "chr10",
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1816 "call": "G|G",
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1818 "*3"
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1819 ],
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1824 },
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1826 "gene": "CYP2C19",
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1827 "chromosome": "chr10",
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1829 "dbSnpId": "rs6413438",
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1830 "call": "C|C",
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1831 "alleles": [
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1832 "*10"
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1833 ],
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1834 "phased": true,
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1835 "wildtypeAllele": "C",
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1837 "warnings": []
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1838 },
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1839 {
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1840 "gene": "CYP2C19",
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1841 "chromosome": "chr10",
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parents:
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1844 "call": "G|G",
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1846 "*2"
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1847 ],
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1848 "phased": true,
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1849 "wildtypeAllele": "G",
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1852 },
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1855 "chromosome": "chr10",
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1858 "call": "G|G",
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1859 "alleles": [
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1860 "*26"
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bgruening
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1861 ],
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1862 "phased": true,
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1863 "wildtypeAllele": "G",
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1865 "warnings": []
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1866 },
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bgruening
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1867 {
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1868 "gene": "CYP2C19",
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1869 "chromosome": "chr10",
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bgruening
parents:
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1871 "dbSnpId": "rs72558186",
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bgruening
parents:
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1872 "call": "T|T",
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bgruening
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1873 "alleles": [
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bgruening
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diff changeset
1874 "*7"
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bgruening
parents:
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1875 ],
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bgruening
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1876 "phased": true,
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1877 "wildtypeAllele": "T",
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bgruening
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1878 "mismatch": false,
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bgruening
parents: 0
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1879 "warnings": []
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bgruening
parents:
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1880 },
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bgruening
parents:
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1881 {
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parents:
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1882 "gene": "CYP2C19",
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bgruening
parents:
diff changeset
1883 "chromosome": "chr10",
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bgruening
parents:
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1884 "position": 94842861,
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bgruening
parents:
diff changeset
1885 "dbSnpId": "rs138142612",
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bgruening
parents:
diff changeset
1886 "call": "G|G",
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bgruening
parents:
diff changeset
1887 "alleles": [
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bgruening
parents:
diff changeset
1888 "*18"
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bgruening
parents:
diff changeset
1889 ],
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bgruening
parents:
diff changeset
1890 "phased": true,
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bgruening
parents:
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1891 "wildtypeAllele": "G",
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bgruening
parents: 0
diff changeset
1892 "mismatch": false,
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bgruening
parents: 0
diff changeset
1893 "warnings": []
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bgruening
parents:
diff changeset
1894 },
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bgruening
parents:
diff changeset
1895 {
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bgruening
parents:
diff changeset
1896 "gene": "CYP2C19",
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bgruening
parents:
diff changeset
1897 "chromosome": "chr10",
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bgruening
parents:
diff changeset
1898 "position": 94842866,
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bgruening
parents:
diff changeset
1899 "dbSnpId": "rs3758581",
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bgruening
parents:
diff changeset
1900 "call": "A|A",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1901 "alleles": [
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bgruening
parents:
diff changeset
1902 "*2",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1903 "*3",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1904 "*4",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1905 "*5",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1906 "*6",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1907 "*8",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1908 "*9",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1909 "*10",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1910 "*11",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1911 "*12",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1912 "*13",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1913 "*14",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1914 "*15",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1915 "*17",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1916 "*18",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1917 "*19",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1918 "*22",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1919 "*23",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1920 "*24",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1921 "*25",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1922 "*26",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1923 "*28",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1924 "*29",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1925 "*31",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1926 "*32",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1927 "*33",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1928 "*35",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1929 "*39"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1930 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1931 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1932 "wildtypeAllele": "A",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1933 "mismatch": false,
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1934 "warnings": []
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1935 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1936 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1937 "gene": "CYP2C19",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1938 "chromosome": "chr10",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1939 "position": 94842879,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1940 "dbSnpId": "rs118203757",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1941 "call": "G|G",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1942 "alleles": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1943 "*24"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1944 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1945 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1946 "wildtypeAllele": "G",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1947 "mismatch": false,
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1948 "warnings": []
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1949 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1950 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1951 "gene": "CYP2C19",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1952 "chromosome": "chr10",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1953 "position": 94842995,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1954 "dbSnpId": "rs113934938",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1955 "call": "G|G",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1956 "alleles": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1957 "*28"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1958 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1959 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1960 "wildtypeAllele": "G",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1961 "mismatch": false,
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1962 "warnings": []
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1963 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1964 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1965 "gene": "CYP2C19",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1966 "chromosome": "chr10",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1967 "position": 94849995,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1968 "dbSnpId": "rs17879685",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1969 "call": "C|C",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1970 "alleles": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1971 "*13"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1972 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1973 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1974 "wildtypeAllele": "C",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1975 "mismatch": false,
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1976 "warnings": []
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1977 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1978 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1979 "gene": "CYP2C19",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1980 "chromosome": "chr10",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1981 "position": 94852738,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1982 "dbSnpId": "rs56337013",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1983 "call": "C|C",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1984 "alleles": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1985 "*5"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1986 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1987 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1988 "wildtypeAllele": "C",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1989 "mismatch": false,
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
1990 "warnings": []
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1991 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1992 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1993 "gene": "CYP2C19",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1994 "chromosome": "chr10",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1995 "position": 94852765,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1996 "dbSnpId": "rs192154563",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1997 "call": "C|C",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1998 "alleles": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
1999 "*16"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2000 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2001 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2002 "wildtypeAllele": "C",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
2003 "mismatch": false,
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
2004 "warnings": []
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2005 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2006 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2007 "gene": "CYP2C19",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2008 "chromosome": "chr10",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2009 "position": 94852785,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2010 "dbSnpId": "rs118203759",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2011 "call": "C|C",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2012 "alleles": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2013 "*25"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2014 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2015 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2016 "wildtypeAllele": "C",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
2017 "mismatch": false,
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
2018 "warnings": []
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
2019 },
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2020 {
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2021 "gene": "CYP2C19",
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diff changeset
2022 "chromosome": "chr10",
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2023 "position": 94852914,
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2024 "dbSnpId": "rs55640102",
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diff changeset
2025 "call": "A|A",
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2026 "alleles": [
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2027 "*12"
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2028 ],
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2029 "phased": true,
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2030 "wildtypeAllele": "A",
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2031 "mismatch": false,
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2032 "warnings": []
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2033 }
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2034 ],
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2035 "variantsOfInterest": [],
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2036 "highlightedVariants": []
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2037 },
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2038 {
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2039 "geneSymbol": "CYP2C9",
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2040 "chr": "chr10",
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2042 "callSource": "MATCHER",
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2043 "uncalledHaplotypes": [
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2044 "*72",
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2045 "*73",
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2049 "*77",
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2050 "*78",
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2051 "*79",
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2052 "*80",
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2053 "*81",
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2054 "*82",
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2055 "*83",
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2056 "*84",
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2057 "*85"
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2058 ],
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2059 "messages": [],
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2060 "relatedDrugs": [
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2061 {
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2062 "name": "celecoxib",
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2064 },
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2065 {
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2066 "name": "flurbiprofen",
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2068 },
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2069 {
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2070 "name": "fluvastatin",
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2072 },
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2076 },
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2077 {
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2078 "name": "ibuprofen",
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2080 },
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2081 {
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2082 "name": "lornoxicam",
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2083 "guidelineId": "RxNorm:20890"
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2084 },
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2085 {
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2086 "name": "meloxicam",
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2088 },
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2089 {
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2090 "name": "phenytoin",
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2092 },
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2093 {
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2094 "name": "piroxicam",
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2095 "guidelineId": "RxNorm:8356"
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2096 },
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2097 {
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2098 "name": "tenoxicam",
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2100 },
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2101 {
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2102 "name": "warfarin",
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2103 "guidelineId": "RxNorm:11289"
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2104 }
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2105 ],
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2106 "matcherDiplotypes": [
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2107 {
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2108 "allele1": {
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2109 "gene": "CYP2C9",
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2110 "name": "*1",
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2111 "function": "Normal function",
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2462 "*63"
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3298 "warnings": []
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3299 }
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3301 "highlightedVariants": []
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3302 },
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3310 "relatedDrugs": [
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3314 },
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3318 },
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3319 {
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3322 },
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3330 },
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3331 {
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3332 "name": "doxepin",
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3334 },
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diff changeset
3335 {
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3336 "name": "fluvoxamine",
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3338 },
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3339 {
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3340 "name": "hydrocodone",
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3341 "guidelineId": "RxNorm:5489"
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3342 },
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3343 {
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3344 "name": "imipramine",
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3346 },
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3347 {
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3348 "name": "nortriptyline",
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3350 },
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3351 {
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3352 "name": "ondansetron",
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3354 },
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3355 {
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3356 "name": "paroxetine",
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3358 },
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3359 {
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3360 "name": "tamoxifen",
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3362 },
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3363 {
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3366 },
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3367 {
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3368 "name": "trimipramine",
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3369 "guidelineId": "RxNorm:10834"
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3370 },
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3371 {
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3372 "name": "tropisetron",
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3373 "guidelineId": "RxNorm:27392"
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3374 }
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3375 ],
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3376 "matcherDiplotypes": [],
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3377 "diplotypes": [
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3378 {
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3379 "allele1": {
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3380 "gene": "CYP2D6",
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3382 "function": "Normal function",
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3383 "reference": true
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3384 },
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3385 "allele2": {
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3386 "gene": "CYP2D6",
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3387 "name": "*3",
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bgruening
parents:
diff changeset
3388 "function": "No function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3389 "reference": false
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bgruening
parents:
diff changeset
3390 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3391 "gene": "CYP2D6",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3392 "phenotypes": [
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bgruening
parents: 0
diff changeset
3393 "Intermediate Metabolizer"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3394 ],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3395 "variant": null,
1
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bgruening
parents: 0
diff changeset
3396 "lookupKey": [
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bgruening
parents: 0
diff changeset
3397 "1"
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bgruening
parents: 0
diff changeset
3398 ],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3399 "label": "*1/*3"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3400 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3401 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3402 "variants": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3403 "variantsOfInterest": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3404 "highlightedVariants": []
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3405 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3406 {
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bgruening
parents:
diff changeset
3407 "geneSymbol": "CYP3A5",
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bgruening
parents:
diff changeset
3408 "chr": "chr7",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3409 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3410 "callSource": "MATCHER",
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bgruening
parents:
diff changeset
3411 "uncalledHaplotypes": [],
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bgruening
parents:
diff changeset
3412 "messages": [
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bgruening
parents:
diff changeset
3413 {
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bgruening
parents:
diff changeset
3414 "rule_name": "CYP3A5 reverse complement footnote",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3415 "version": "1",
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bgruening
parents:
diff changeset
3416 "matches": {
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bgruening
parents:
diff changeset
3417 "gene": "CYP3A5",
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bgruening
parents:
diff changeset
3418 "hapsCalled": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3419 "hapsMissing": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3420 "variantsMissing": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3421 "variant": "",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3422 "dips": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3423 "drugs": []
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3424 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3425 "exception_type": "footnote",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3426 "message": "The CYP3A5 gene is on the negative chromosomal strand, all genotype calls for CYP3A5 in this report refer to the positive chromosomal strand. Therefore, genotype calls are complemented from gene bases."
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3427 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3428 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3429 "relatedDrugs": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3430 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3431 "name": "tacrolimus",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3432 "guidelineId": "RxNorm:42316"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3433 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3434 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3435 "matcherDiplotypes": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3436 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3437 "allele1": {
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bgruening
parents:
diff changeset
3438 "gene": "CYP3A5",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3439 "name": "*1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3440 "function": "Normal function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3441 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3442 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3443 "allele2": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3444 "gene": "CYP3A5",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3445 "name": "*1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3446 "function": "Normal function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3447 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3448 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3449 "gene": "CYP3A5",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3450 "phenotypes": [
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bgruening
parents: 0
diff changeset
3451 "Normal Metabolizer"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3452 ],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3453 "variant": null,
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3454 "lookupKey": [
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3455 "Normal Metabolizer"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3456 ],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3457 "label": "*1/*1"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3458 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3459 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3460 "diplotypes": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3461 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3462 "allele1": {
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bgruening
parents:
diff changeset
3463 "gene": "CYP3A5",
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bgruening
parents:
diff changeset
3464 "name": "*1",
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bgruening
parents:
diff changeset
3465 "function": "Normal function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3466 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3467 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3468 "allele2": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3469 "gene": "CYP3A5",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3470 "name": "*1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3471 "function": "Normal function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3472 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3473 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3474 "gene": "CYP3A5",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3475 "phenotypes": [
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3476 "Normal Metabolizer"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3477 ],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3478 "variant": null,
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3479 "lookupKey": [
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3480 "Normal Metabolizer"
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3482 "label": "*1/*1"
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3483 }
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3493 "*7"
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3499 },
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3507 "*9"
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3508 ],
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3513 },
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3521 "*6"
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3522 ],
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3527 },
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3528 {
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3533 "call": "T|T",
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3535 "*3"
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3536 ],
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3537 "phased": true,
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3538 "wildtypeAllele": "T",
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3541 },
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3542 {
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3544 "chromosome": "chr7",
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3547 "call": "G|G",
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3548 "alleles": [
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3549 "*8"
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3550 ],
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3551 "phased": true,
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3554 "warnings": []
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3555 }
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bgruening
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3556 ],
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3557 "variantsOfInterest": [],
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3558 "highlightedVariants": []
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3559 },
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3560 {
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3561 "geneSymbol": "CYP4F2",
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3562 "chr": "chr19",
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3564 "callSource": "MATCHER",
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3565 "uncalledHaplotypes": [],
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3566 "messages": [],
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3567 "relatedDrugs": [
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3568 {
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3569 "name": "warfarin",
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3570 "guidelineId": "RxNorm:11289"
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bgruening
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3571 }
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diff changeset
3663 "variant": "",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3664 "dips": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3665 "drugs": []
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3666 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3667 "exception_type": "footnote",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3668 "message": "The DPYD gene is on the negative chromosomal strand, all genotype calls for DPYD in this report refer to the positive chromosomal strand. Therefore, genotype calls are complemented from gene bases."
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3669 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3670 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3671 "relatedDrugs": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3672 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3673 "name": "capecitabine",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3674 "guidelineId": "RxNorm:194000"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3675 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3676 {
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bgruening
parents:
diff changeset
3677 "name": "fluorouracil",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3678 "guidelineId": "RxNorm:4492"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3679 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3680 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3681 "matcherDiplotypes": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3682 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3683 "allele1": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3684 "gene": "DPYD",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3685 "name": "Reference",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3686 "function": "Normal function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3687 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3688 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3689 "allele2": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3690 "gene": "DPYD",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3691 "name": "Reference",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3692 "function": "Normal function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3693 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3694 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3695 "gene": "DPYD",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3696 "phenotypes": [
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bgruening
parents: 0
diff changeset
3697 "Normal Metabolizer"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3698 ],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3699 "variant": null,
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3700 "lookupKey": [
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bgruening
parents: 0
diff changeset
3701 "2"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3702 ],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3703 "label": "Reference/Reference"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3704 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3705 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3706 "diplotypes": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3707 {
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bgruening
parents:
diff changeset
3708 "allele1": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3709 "gene": "DPYD",
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bgruening
parents:
diff changeset
3710 "name": "Reference",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3711 "function": "Normal function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3712 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3713 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3714 "allele2": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3715 "gene": "DPYD",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3716 "name": "Reference",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3717 "function": "Normal function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3718 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3719 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3720 "gene": "DPYD",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3721 "phenotypes": [
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3722 "Normal Metabolizer"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3723 ],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3724 "variant": null,
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3725 "lookupKey": [
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3726 "2"
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3727 ],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3728 "label": "Reference/Reference"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3729 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3730 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3731 "variants": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3732 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3733 "gene": "DPYD",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3734 "chromosome": "chr1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3735 "position": 97078987,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3736 "dbSnpId": "rs114096998",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3737 "call": "G|G",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3738 "alleles": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3739 "c.3067C\u003eA"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3740 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3741 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3742 "wildtypeAllele": "G",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3743 "mismatch": false,
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
3744 "warnings": []
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3745 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3746 {
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bgruening
parents:
diff changeset
3747 "gene": "DPYD",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3748 "chromosome": "chr1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3749 "position": 97078993,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3750 "dbSnpId": "rs148799944",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3751 "call": "C|C",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3752 "alleles": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3753 "c.3061G\u003eC"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
3754 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
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4931 "lookupKey": [
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bgruening
parents: 0
diff changeset
4932 "Normal"
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bgruening
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diff changeset
4933 ],
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d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
4934 "label": "B (wildtype)/B (wildtype)"
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bgruening
parents:
diff changeset
4935 }
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bgruening
parents:
diff changeset
4936 ],
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bgruening
parents:
diff changeset
4937 "variants": [],
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bgruening
parents:
diff changeset
4938 "variantsOfInterest": [],
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bgruening
parents:
diff changeset
4939 "highlightedVariants": []
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bgruening
parents:
diff changeset
4940 },
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bgruening
parents:
diff changeset
4941 {
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bgruening
parents:
diff changeset
4942 "geneSymbol": "IFNL3",
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bgruening
parents:
diff changeset
4943 "chr": "chr19",
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bgruening
parents:
diff changeset
4944 "phased": true,
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bgruening
parents:
diff changeset
4945 "callSource": "MATCHER",
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bgruening
parents:
diff changeset
4946 "uncalledHaplotypes": [],
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bgruening
parents:
diff changeset
4947 "messages": [
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bgruening
parents:
diff changeset
4948 {
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bgruening
parents:
diff changeset
4949 "rule_name": "IFNL3 reverse complement footnote",
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bgruening
parents:
diff changeset
4950 "version": "1",
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bgruening
parents:
diff changeset
4951 "matches": {
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bgruening
parents:
diff changeset
4952 "gene": "IFNL3",
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bgruening
parents:
diff changeset
4953 "hapsCalled": [],
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bgruening
parents:
diff changeset
4954 "hapsMissing": [],
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bgruening
parents:
diff changeset
4955 "variantsMissing": [],
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bgruening
parents:
diff changeset
4956 "variant": "",
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bgruening
parents:
diff changeset
4957 "dips": [],
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bgruening
parents:
diff changeset
4958 "drugs": []
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bgruening
parents:
diff changeset
4959 },
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bgruening
parents:
diff changeset
4960 "exception_type": "footnote",
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bgruening
parents:
diff changeset
4961 "message": "The IFNL3 gene is on the negative chromosomal strand, all genotype calls for IFNL3 in this report refer to the positive chromosomal strand. Therefore, genotype calls are complemented from gene bases."
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
4962 }
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bgruening
parents:
diff changeset
4963 ],
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bgruening
parents:
diff changeset
4964 "relatedDrugs": [
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bgruening
parents:
diff changeset
4965 {
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bgruening
parents:
diff changeset
4966 "name": "peginterferon alfa-2a",
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bgruening
parents:
diff changeset
4967 "guidelineId": "RxNorm:120608"
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bgruening
parents:
diff changeset
4968 },
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bgruening
parents:
diff changeset
4969 {
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bgruening
parents:
diff changeset
4970 "name": "peginterferon alfa-2b",
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bgruening
parents:
diff changeset
4971 "guidelineId": "RxNorm:253453"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
4972 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
4973 ],
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bgruening
parents:
diff changeset
4974 "matcherDiplotypes": [
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bgruening
parents:
diff changeset
4975 {
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bgruening
parents:
diff changeset
4976 "allele1": {
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bgruening
parents:
diff changeset
4977 "gene": "IFNL3",
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bgruening
parents:
diff changeset
4978 "name": "rs12979860 reference (C)",
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bgruening
parents:
diff changeset
4979 "function": null,
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bgruening
parents:
diff changeset
4980 "reference": true
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bgruening
parents:
diff changeset
4981 },
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bgruening
parents:
diff changeset
4982 "allele2": {
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bgruening
parents:
diff changeset
4983 "gene": "IFNL3",
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bgruening
parents:
diff changeset
4984 "name": "rs12979860 reference (C)",
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bgruening
parents:
diff changeset
4985 "function": null,
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bgruening
parents:
diff changeset
4986 "reference": true
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bgruening
parents:
diff changeset
4987 },
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bgruening
parents:
diff changeset
4988 "gene": "IFNL3",
1
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bgruening
parents: 0
diff changeset
4989 "phenotypes": [],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
4990 "variant": null,
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891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
4991 "lookupKey": [],
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bgruening
parents:
diff changeset
4992 "label": "rs12979860 reference (C)/rs12979860 reference (C)"
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bgruening
parents:
diff changeset
4993 }
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bgruening
parents:
diff changeset
4994 ],
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bgruening
parents:
diff changeset
4995 "diplotypes": [
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bgruening
parents:
diff changeset
4996 {
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bgruening
parents:
diff changeset
4997 "allele1": {
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bgruening
parents:
diff changeset
4998 "gene": "IFNL3",
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bgruening
parents:
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4999 "name": "rs12979860 reference (C)",
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parents:
diff changeset
5000 "function": null,
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bgruening
parents:
diff changeset
5001 "reference": true
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bgruening
parents:
diff changeset
5002 },
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bgruening
parents:
diff changeset
5003 "allele2": {
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bgruening
parents:
diff changeset
5004 "gene": "IFNL3",
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bgruening
parents:
diff changeset
5005 "name": "rs12979860 reference (C)",
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bgruening
parents:
diff changeset
5006 "function": null,
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bgruening
parents:
diff changeset
5007 "reference": true
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bgruening
parents:
diff changeset
5008 },
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bgruening
parents:
diff changeset
5009 "gene": "IFNL3",
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bgruening
parents: 0
diff changeset
5010 "phenotypes": [],
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d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
5011 "variant": null,
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891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
5012 "lookupKey": [],
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d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
5013 "label": "rs12979860 reference (C)/rs12979860 reference (C)"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
5014 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
5015 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
5016 "variants": [
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bgruening
parents:
diff changeset
5017 {
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bgruening
parents:
diff changeset
5018 "gene": "IFNL3",
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bgruening
parents:
diff changeset
5019 "chromosome": "chr19",
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bgruening
parents:
diff changeset
5020 "position": 39248147,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
5021 "dbSnpId": "rs12979860",
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bgruening
parents:
diff changeset
5022 "call": "C|C",
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5023 "alleles": [
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5024 "rs12979860 variant (T)"
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5025 ],
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5026 "phased": true,
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5027 "wildtypeAllele": "C",
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5028 "mismatch": false,
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5029 "warnings": []
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5030 }
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5031 ],
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5032 "variantsOfInterest": [],
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5033 "highlightedVariants": []
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5034 },
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5035 {
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5036 "geneSymbol": "MT-RNR1",
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5039 "callSource": "OUTSIDE",
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5040 "uncalledHaplotypes": [],
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5041 "messages": [],
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5042 "relatedDrugs": [
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5043 {
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5044 "name": "amikacin",
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5045 "guidelineId": "RxNorm:641"
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5046 },
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5047 {
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5048 "name": "gentamicin",
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5049 "guidelineId": "ATC:D06AX07"
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5050 },
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5052 "name": "kanamycin",
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5053 "guidelineId": "RxNorm:6099"
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5054 },
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5056 "name": "paromomycin",
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5058 },
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5059 {
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5060 "name": "plazomicin",
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5062 },
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5063 {
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5064 "name": "streptomycin",
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5065 "guidelineId": "RxNorm:10109"
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5066 },
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5067 {
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5068 "name": "tobramycin",
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5070 }
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5071 ],
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5072 "matcherDiplotypes": [],
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5073 "diplotypes": [
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5074 {
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5075 "allele1": {
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5076 "gene": "MT-RNR1",
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5077 "name": "1555A\u003eG",
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5078 "function": "increased risk of aminoglycoside-induced hearing loss",
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5079 "reference": false
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5080 },
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5082 "gene": "MT-RNR1",
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5083 "phenotypes": [
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5084 "increased risk of aminoglycoside-induced hearing loss"
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5085 ],
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5086 "variant": null,
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5087 "lookupKey": [
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5088 "increased risk of aminoglycoside-induced hearing loss"
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5089 ],
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5090 "label": "1555A\u003eG"
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5091 }
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5095 "highlightedVariants": []
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5096 },
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5097 {
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5098 "geneSymbol": "NUDT15",
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5101 "callSource": "MATCHER",
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5102 "uncalledHaplotypes": [],
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5103 "messages": [],
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5104 "relatedDrugs": [
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5105 {
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5106 "name": "azathioprine",
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bgruening
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5108 },
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bgruening
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5109 {
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5110 "name": "mercaptopurine",
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parents:
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5111 "guidelineId": "RxNorm:103"
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bgruening
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5112 },
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bgruening
parents:
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5389 "*4"
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5390 ],
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5392 "wildtypeAllele": "G",
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5395 },
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5398 "chromosome": "chr13",
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5403 "*15"
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5409 }
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5410 ],
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5411 "variantsOfInterest": [],
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5412 "highlightedVariants": []
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5413 },
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5414 {
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5415 "geneSymbol": "RYR1",
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5416 "chr": "chr19",
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5418 "callSource": "MATCHER",
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5419 "uncalledHaplotypes": [],
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5420 "messages": [],
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5421 "relatedDrugs": [
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5422 {
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5423 "name": "desflurane",
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5424 "guidelineId": "RxNorm:27340"
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5425 },
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5426 {
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5427 "name": "enflurane",
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5428 "guidelineId": "RxNorm:3920"
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5429 },
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5430 {
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5431 "name": "halothane",
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5432 "guidelineId": "RxNorm:5095"
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5433 },
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5434 {
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5437 },
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5438 {
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5439 "name": "methoxyflurane",
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5441 },
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5442 {
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5443 "name": "sevoflurane",
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5445 },
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5446 {
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5447 "name": "succinylcholine",
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5450 ],
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5452 {
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5456 "function": "Normal function",
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5458 },
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5464 },
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5465 "gene": "RYR1",
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5466 "phenotypes": [
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5467 "Uncertain Susceptibility"
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5468 ],
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5469 "variant": null,
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5470 "lookupKey": [
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5471 "Uncertain Susceptibility"
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5472 ],
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5474 }
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5475 ],
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5477 {
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6283 "*14",
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6287 "*25",
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6288 "*27",
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6289 "*28",
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6290 "*29",
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6291 "*30",
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6292 "*31",
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6293 "*32",
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6294 "*33",
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6295 "*37",
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6296 "*39",
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6561 "*13"
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6663 "mismatch": false,
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6664 "warnings": []
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diff changeset
6665 },
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6666 {
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6667 "gene": "SLCO1B1",
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bgruening
parents:
diff changeset
6668 "chromosome": "chr12",
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6669 "position": 21206031,
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6670 "dbSnpId": "rs74064213",
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bgruening
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6671 "call": null,
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bgruening
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6672 "alleles": [
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6673 "*43",
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6674 "*44"
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bgruening
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6675 ],
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bgruening
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6676 "phased": false,
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6677 "wildtypeAllele": "A",
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6678 "mismatch": false,
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6679 "warnings": []
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bgruening
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6680 },
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bgruening
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diff changeset
6681 {
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6682 "gene": "SLCO1B1",
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6683 "chromosome": "chr12",
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6684 "position": 21222355,
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bgruening
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6685 "dbSnpId": "rs71581941",
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bgruening
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bgruening
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6687 "alleles": [
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6688 "*45",
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bgruening
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diff changeset
6689 "*46"
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bgruening
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6690 ],
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bgruening
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6691 "phased": false,
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bgruening
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6692 "wildtypeAllele": "C",
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bgruening
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6693 "mismatch": false,
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diff changeset
6694 "warnings": []
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bgruening
parents:
diff changeset
6695 }
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bgruening
parents:
diff changeset
6696 ],
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bgruening
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diff changeset
6697 "variantsOfInterest": [],
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bgruening
parents:
diff changeset
6698 "highlightedVariants": [
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bgruening
parents:
diff changeset
6699 "rs4149056T/rs4149056T"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6700 ]
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6701 },
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bgruening
parents:
diff changeset
6702 {
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bgruening
parents:
diff changeset
6703 "geneSymbol": "TPMT",
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bgruening
parents:
diff changeset
6704 "chr": "chr6",
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bgruening
parents:
diff changeset
6705 "phased": true,
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bgruening
parents:
diff changeset
6706 "callSource": "MATCHER",
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bgruening
parents:
diff changeset
6707 "uncalledHaplotypes": [],
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bgruening
parents:
diff changeset
6708 "messages": [
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bgruening
parents:
diff changeset
6709 {
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bgruening
parents:
diff changeset
6710 "rule_name": "TPMT reverse complement footnote",
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bgruening
parents:
diff changeset
6711 "version": "1",
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bgruening
parents:
diff changeset
6712 "matches": {
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bgruening
parents:
diff changeset
6713 "gene": "TPMT",
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bgruening
parents:
diff changeset
6714 "hapsCalled": [],
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bgruening
parents:
diff changeset
6715 "hapsMissing": [],
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bgruening
parents:
diff changeset
6716 "variantsMissing": [],
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bgruening
parents:
diff changeset
6717 "variant": "",
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bgruening
parents:
diff changeset
6718 "dips": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6719 "drugs": []
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bgruening
parents:
diff changeset
6720 },
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bgruening
parents:
diff changeset
6721 "exception_type": "footnote",
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bgruening
parents:
diff changeset
6722 "message": "The TPMT gene is on the negative chromosomal strand, all genotype calls for TPMT in this report refer to the positive chromosomal strand. Therefore, genotype calls are complemented from gene bases."
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6723 }
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bgruening
parents:
diff changeset
6724 ],
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bgruening
parents:
diff changeset
6725 "relatedDrugs": [
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bgruening
parents:
diff changeset
6726 {
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bgruening
parents:
diff changeset
6727 "name": "azathioprine",
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bgruening
parents:
diff changeset
6728 "guidelineId": "RxNorm:1256"
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bgruening
parents:
diff changeset
6729 },
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bgruening
parents:
diff changeset
6730 {
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bgruening
parents:
diff changeset
6731 "name": "mercaptopurine",
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bgruening
parents:
diff changeset
6732 "guidelineId": "RxNorm:103"
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bgruening
parents:
diff changeset
6733 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6734 {
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bgruening
parents:
diff changeset
6735 "name": "thioguanine",
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bgruening
parents:
diff changeset
6736 "guidelineId": "RxNorm:10485"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6737 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6738 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6739 "matcherDiplotypes": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6740 {
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bgruening
parents:
diff changeset
6741 "allele1": {
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bgruening
parents:
diff changeset
6742 "gene": "TPMT",
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bgruening
parents:
diff changeset
6743 "name": "*1",
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bgruening
parents:
diff changeset
6744 "function": "Normal Function",
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bgruening
parents:
diff changeset
6745 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6746 },
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bgruening
parents:
diff changeset
6747 "allele2": {
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bgruening
parents:
diff changeset
6748 "gene": "TPMT",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6749 "name": "*1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6750 "function": "Normal Function",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6751 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6752 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
6753 "gene": "TPMT",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
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diff changeset
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6780 "Normal Metabolizer"
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6814 ],
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6827 "*7"
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6828 ],
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6833 },
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6841 "*40"
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6842 ],
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7393 "mismatch": false,
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diff changeset
7394 "warnings": []
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diff changeset
7395 }
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diff changeset
7396 ],
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7397 "variantsOfInterest": [],
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diff changeset
7398 "highlightedVariants": []
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7399 },
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7400 {
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7401 "geneSymbol": "UGT1A1",
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7402 "chr": "chr2",
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7403 "phased": true,
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diff changeset
7404 "callSource": "MATCHER",
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parents:
diff changeset
7405 "uncalledHaplotypes": [],
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diff changeset
7406 "messages": [
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7407 {
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7408 "rule_name": "UGT1A1 repeat warning",
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7409 "version": "1",
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7410 "matches": {
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7411 "gene": "UGT1A1",
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7412 "hapsCalled": [],
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7413 "hapsMissing": [],
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diff changeset
7414 "variantsMissing": [],
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7415 "variant": "",
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diff changeset
7416 "dips": [],
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parents:
diff changeset
7417 "drugs": []
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7418 },
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7419 "exception_type": "footnote",
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diff changeset
7420 "message": "Some alleles in UGT1A1 are distinguished by a repeat sequence; some genotyping technologies may not accurately call the repeat."
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7421 }
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7422 ],
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7423 "relatedDrugs": [
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7424 {
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diff changeset
7425 "name": "atazanavir",
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7426 "guidelineId": "RxNorm:343047"
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7427 }
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7428 ],
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7429 "matcherDiplotypes": [
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7430 {
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diff changeset
7431 "allele1": {
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diff changeset
7432 "gene": "UGT1A1",
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7433 "name": "*1",
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diff changeset
7434 "function": "Normal function",
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7435 "reference": true
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diff changeset
7436 },
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7437 "allele2": {
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7438 "gene": "UGT1A1",
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7439 "name": "*1",
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7440 "function": "Normal function",
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7441 "reference": true
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diff changeset
7442 },
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7443 "gene": "UGT1A1",
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7444 "phenotypes": [
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diff changeset
7445 "Normal Metabolizer"
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7446 ],
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7447 "variant": null,
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7448 "lookupKey": [
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diff changeset
7449 "Normal Metabolizer"
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7450 ],
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7451 "label": "*1/*1"
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7452 }
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7453 ],
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7454 "diplotypes": [
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7455 {
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7456 "allele1": {
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7458 "name": "*1",
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7459 "function": "Normal function",
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7460 "reference": true
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7461 },
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7462 "allele2": {
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7463 "gene": "UGT1A1",
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7464 "name": "*1",
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parents:
diff changeset
7465 "function": "Normal function",
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bgruening
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7466 "reference": true
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bgruening
parents:
diff changeset
7467 },
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bgruening
parents:
diff changeset
7468 "gene": "UGT1A1",
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bgruening
parents: 0
diff changeset
7469 "phenotypes": [
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bgruening
parents: 0
diff changeset
7470 "Normal Metabolizer"
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parents: 0
diff changeset
7471 ],
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parents:
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7472 "variant": null,
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parents: 0
diff changeset
7473 "lookupKey": [
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bgruening
parents: 0
diff changeset
7474 "Normal Metabolizer"
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7475 ],
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parents:
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7476 "label": "*1/*1"
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diff changeset
7477 }
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bgruening
parents:
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7478 ],
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7479 "variants": [
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bgruening
parents:
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7480 {
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7481 "gene": "UGT1A1",
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bgruening
parents:
diff changeset
7482 "chromosome": "chr2",
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parents:
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7483 "position": 233759924,
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bgruening
parents:
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7484 "dbSnpId": "rs887829",
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diff changeset
7575 "variantsMissing": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7576 "variant": "",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7577 "dips": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7578 "drugs": []
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7579 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7580 "exception_type": "footnote",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7581 "message": "The VKORC1 gene is on the negative chromosomal strand, all genotype calls for VKORC1 in this report refer to the positive chromosomal strand. Therefore, genotype calls are complemented from gene bases."
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7582 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7583 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7584 "relatedDrugs": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7585 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7586 "name": "warfarin",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7587 "guidelineId": "RxNorm:11289"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7588 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7589 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7590 "matcherDiplotypes": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7591 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7592 "allele1": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7593 "gene": "VKORC1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7594 "name": "rs9923231 reference (C)",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7595 "function": null,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7596 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7597 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7598 "allele2": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7599 "gene": "VKORC1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7600 "name": "rs9923231 reference (C)",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7601 "function": null,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7602 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7603 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7604 "gene": "VKORC1",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
7605 "phenotypes": [],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7606 "variant": null,
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
7607 "lookupKey": [],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7608 "label": "rs9923231 reference (C)/rs9923231 reference (C)"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7609 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7610 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7611 "diplotypes": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7612 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7613 "allele1": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7614 "gene": "VKORC1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7615 "name": "rs9923231 reference (C)",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7616 "function": null,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7617 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7618 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7619 "allele2": {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7620 "gene": "VKORC1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7621 "name": "rs9923231 reference (C)",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7622 "function": null,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7623 "reference": true
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7624 },
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7625 "gene": "VKORC1",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
7626 "phenotypes": [],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7627 "variant": null,
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
7628 "lookupKey": [],
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7629 "label": "rs9923231 reference (C)/rs9923231 reference (C)"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7630 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7631 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7632 "variants": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7633 {
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7634 "gene": "VKORC1",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7635 "chromosome": "chr16",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7636 "position": 31096368,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7637 "dbSnpId": "rs9923231",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7638 "call": "C|C",
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7639 "alleles": [
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7640 "rs9923231 variant (T)"
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7641 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7642 "phased": true,
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7643 "wildtypeAllele": "C",
1
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
7644 "mismatch": false,
891283e0ee89 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit dddf99b20ed9b07334505917f362785e3dace3b9"
bgruening
parents: 0
diff changeset
7645 "warnings": []
0
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7646 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7647 ],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7648 "variantsOfInterest": [],
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7649 "highlightedVariants": []
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7650 }
d67642a21a1d "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/pharmcat commit c6a098eb0cbfa87b0feaebf10ef6b24da659fa54"
bgruening
parents:
diff changeset
7651 ]