annotate test-data/output_file.tabular @ 24:3bc67ac46740 draft

planemo upload for repository https://github.com/monikaheinzl/duplexanalysis_galaxy/tree/master/tools/hd commit b8a2f7b7615b2bcd3b602027af31f4e677da94f6-dirty
author mheinzl
date Wed, 27 Feb 2019 09:17:04 -0500
parents 7e570ba56b83
children
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1 Test_data
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2 number of tags per file 20 (from 20) against 20
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4 Hamming distance separated by family size
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5 FS=1 FS=2 FS=3 FS=4 FS=5-10 FS>10 sum
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6 HD=1 5 1 1 1 1 0 9
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7 HD=6 3 0 0 0 0 0 3
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8 HD=7 4 0 0 0 1 0 5
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9 HD=8 2 0 0 1 0 0 3
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10 sum 14 1 1 2 2 0 20
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12 Family size distribution separated by Hamming distance
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13 HD=1 HD=2 HD=3 HD=4 HD=5-8 HD>8 sum
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14 FS=1 5 0 0 0 9 0 14
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15 FS=2 1 0 0 0 0 0 1
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16 FS=3 1 0 0 0 0 0 1
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17 FS=4 1 0 0 0 1 0 2
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18 FS=6 1 0 0 0 0 0 1
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19 FS=7 0 0 0 0 1 0 1
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20 sum 9 0 0 0 11 0 20
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22
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23 max. family size in sample: 7
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24 absolute frequency: 1
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25 relative frequency: 0.05
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27 The hamming distances were calculated by comparing each half of all tags against the tag(s) with the minimum Hamming distance per half.
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28 Since this calculation was repeated, but starting with the second half to find all possible chimeras in the data, the actual number of tags in the plots differs from the sample size entered by the user.
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29 In addition, both family sizes of one tag will be included in the plots if only tags of reads that can form a DCS were allowed.
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30 length of one part of the tag = 12
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32 Hamming distance of each half in the tag
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33 HD a HD b' HD b HD a' HD a+b sum
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34 HD=0 20 0 8 1 0 29
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35 HD=1 0 0 1 19 8 28
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36 HD=2 0 0 0 0 1 1
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37 HD=5 0 0 3 0 0 3
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38 HD=6 0 0 2 0 3 5
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39 HD=7 0 1 6 0 4 11
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40 HD=8 0 2 0 0 7 9
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41 HD=9 0 1 0 0 1 2
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42 HD=10 0 2 0 0 2 4
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43 HD=11 0 7 0 0 7 14
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44 HD=12 0 7 0 0 7 14
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45 sum 20 20 20 20 40 120
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47 Absolute delta Hamming distances within the tag
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48 FS=1 FS=2 FS=3 FS=4 FS=5-10 FS>10 sum
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49 diff=0 1 0 0 0 0 0 1
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50 diff=1 4 1 1 1 1 0 8
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51 diff=4 3 0 0 0 0 0 3
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52 diff=5 2 0 0 0 0 0 2
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53 diff=6 3 0 0 1 1 0 5
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54 diff=7 2 0 0 0 0 0 2
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55 diff=8 1 0 0 0 1 0 2
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56 diff=9 1 0 0 0 0 0 1
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57 diff=10 2 0 0 0 0 0 2
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58 diff=11 4 0 1 1 1 0 7
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59 diff=12 5 1 0 1 0 0 7
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60 sum 28 2 2 4 4 0 40
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62 Chimera analysis: relative delta Hamming distances
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63 FS=1 FS=2 FS=3 FS=4 FS=5-10 FS>10 sum
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64 diff=0.0 1 0 0 0 0 0 1
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65 diff=0.7 5 0 0 0 0 0 5
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66 diff=0.8 3 0 0 1 1 0 5
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67 diff=1.0 19 2 2 3 3 0 29
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68 sum 28 2 2 4 4 0 40
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70 Chimeras:
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71 All tags were filtered: only those tags where at least one half is identical with the half of the min. tag are kept.
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72 So the Hamming distance of the non-identical half is shown.
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73 Be aware that the real number of chimeric tags (where rel. diff = 1) is not shown in the plot because of the above reasons.
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74 real number of chimeric tags 20 1.0
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75 Hamming distances of non-zero half
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76 FS=1 FS=2 FS=3 FS=4 FS=5-10 FS>10 sum
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77 HD=1 4 1 1 1 1 0 8
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78 HD=7 2 0 0 0 0 0 2
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79 HD=8 1 0 0 0 1 0 2
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80 HD=9 1 0 0 0 0 0 1
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parents: 19
diff changeset
81 HD=10 2 0 0 0 0 0 2
7e570ba56b83 planemo upload for repository https://github.com/monikaheinzl/duplexanalysis_galaxy/tree/master/tools/hd commit b8a2f7b7615b2bcd3b602027af31f4e677da94f6-dirty
mheinzl
parents: 19
diff changeset
82 HD=11 4 0 1 1 1 0 7
7e570ba56b83 planemo upload for repository https://github.com/monikaheinzl/duplexanalysis_galaxy/tree/master/tools/hd commit b8a2f7b7615b2bcd3b602027af31f4e677da94f6-dirty
mheinzl
parents: 19
diff changeset
83 HD=12 5 1 0 1 0 0 7
7e570ba56b83 planemo upload for repository https://github.com/monikaheinzl/duplexanalysis_galaxy/tree/master/tools/hd commit b8a2f7b7615b2bcd3b602027af31f4e677da94f6-dirty
mheinzl
parents: 19
diff changeset
84 sum 19 2 2 3 3 0 29
19
2e9f7ea7ae93 planemo upload for repository https://github.com/monikaheinzl/duplexanalysis_galaxy/tree/master/tools/hd commit dfaab79252a858e8df16bbea3607ebf1b6962e5a-dirty
mheinzl
parents:
diff changeset
85
2e9f7ea7ae93 planemo upload for repository https://github.com/monikaheinzl/duplexanalysis_galaxy/tree/master/tools/hd commit dfaab79252a858e8df16bbea3607ebf1b6962e5a-dirty
mheinzl
parents:
diff changeset
86