Mercurial > repos > iuc > chira_map
comparison chira_map.xml @ 8:b91f9fcd9fc7 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/chira commit a69b18084d0a9ade4e29869f8b0e2ce5fc4e0b73"
| author | iuc |
|---|---|
| date | Sat, 06 Jun 2020 08:12:07 -0400 |
| parents | 6b83059e8f34 |
| children | 95ddee768b61 |
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| 7:6b83059e8f34 | 8:b91f9fcd9fc7 |
|---|---|
| 72 <option value="rc">Reverse compliment of transcript strand only</option> | 72 <option value="rc">Reverse compliment of transcript strand only</option> |
| 73 <option value="both">Try both strands</option> | 73 <option value="both">Try both strands</option> |
| 74 </param> | 74 </param> |
| 75 <param name="seed_length1" type="integer" value="12" label="Seed length 1" min="1" | 75 <param name="seed_length1" type="integer" value="12" label="Seed length 1" min="1" |
| 76 help="Seed length for 1st mapping iteration. bwa-mem parameter -k"/> | 76 help="Seed length for 1st mapping iteration. bwa-mem parameter -k"/> |
| 77 <param name="seed_length2" type="integer" value="6" label="Seed length 2" min="1" | 77 <param name="seed_length2" type="integer" value="16" label="Seed length 2" min="1" |
| 78 help="Seed length for 2nd mapping iteration. bwa-mem parameter -k"/> | 78 help="Seed length for 2nd mapping iteration. bwa-mem parameter -k"/> |
| 79 <param name="align_score1" type="integer" value="18" min="1" | 79 <param name="align_score1" type="integer" value="18" min="1" |
| 80 label="Minimum alignmnet score for 1st mapping iteration" help="bwa-mem parameter '-T'"/> | 80 label="Minimum alignmnet score for 1st mapping iteration" help="bwa-mem parameter '-T'"/> |
| 81 <param name="align_score2" type="integer" value="10" min="1" | 81 <param name="align_score2" type="integer" value="16" min="1" |
| 82 label="Minimum alignmnet score for 2nd mapping iteration" help="bwa-mem parameter '-T'"/> | 82 label="Minimum alignmnet score for 2nd mapping iteration" help="bwa-mem parameter '-T'"/> |
| 83 <param name="match1" type="integer" value="1" label="Matching score for 1st mapping iteration"/> | 83 <param name="match1" type="integer" value="1" label="Matching score for 1st mapping iteration"/> |
| 84 <param name="mismatch1" type="integer" value="4" label="Mismatch penalty for 1st mapping iteration"/> | 84 <param name="mismatch1" type="integer" value="4" label="Mismatch penalty for 1st mapping iteration"/> |
| 85 <param name="match2" type="integer" value="1" label="Matching score for 2nd mapping iteration"/> | 85 <param name="match2" type="integer" value="1" label="Matching score for 2nd mapping iteration"/> |
| 86 <param name="mismatch2" type="integer" value="7" label="Mismatch penalty for 2nd mapping iteration"/> | 86 <param name="mismatch2" type="integer" value="6" label="Mismatch penalty for 2nd mapping iteration"/> |
| 87 <param name="gapo1" type="integer" value="6" label="Gap opening penalty for 1st mapping iteration"/> | 87 <param name="gapo1" type="integer" value="6" label="Gap opening penalty for 1st mapping iteration"/> |
| 88 <param name="gape1" type="integer" value="1" label="Gap extension penalty for 1st mapping iteration"/> | 88 <param name="gape1" type="integer" value="1" label="Gap extension penalty for 1st mapping iteration"/> |
| 89 <param name="gapo2" type="integer" value="100" label="Gap opening penalty for 2nd mapping iteration"/> | 89 <param name="gapo2" type="integer" value="100" label="Gap opening penalty for 2nd mapping iteration"/> |
| 90 <param name="gape2" type="integer" value="100" label="Gap extension penalty for 2nd mapping iteration"/> | 90 <param name="gape2" type="integer" value="100" label="Gap extension penalty for 2nd mapping iteration"/> |
| 91 <param name="nhits1" type="integer" value="50" | 91 <param name="nhits1" type="integer" value="50" |