Mercurial > repos > mvdbeek > damidseq_core
comparison damidseq_core.xml @ 2:69e346fb52a0 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/damidseq_core commit 8b51049c08c770c52ff8444af736c8b85c99db5d
| author | mvdbeek |
|---|---|
| date | Thu, 23 Mar 2017 12:11:32 -0400 |
| parents | 0d1514ecd757 |
| children | e47f77820200 |
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| 1:0d1514ecd757 | 2:69e346fb52a0 |
|---|---|
| 1 <tool id="damidseq_core" name="damidseq" version="0.1.1"> | 1 <tool id="damidseq_core" name="damidseq" version="0.1.2"> |
| 2 <description>align, extend and normalize a DamID-seq experiment</description> | 2 <description>align, extend and normalize a DamID-seq experiment</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="1.4">damidseq_pipeline</requirement> | 4 <requirement type="package" version="1.4">damidseq_pipeline</requirement> |
| 5 </requirements> | 5 </requirements> |
| 6 <version_command><![CDATA[damidseq_pipeline --help 2>&1| grep damidseq_pipeline]]></version_command> | 6 <version_command><![CDATA[damidseq_pipeline --help 2>&1| grep damidseq_pipeline]]></version_command> |
| 65 </param> | 65 </param> |
| 66 <param argument="--norm_steps" type="integer" min="1" value="300" label="Number of points in normalisation routine"/> | 66 <param argument="--norm_steps" type="integer" min="1" value="300" label="Number of points in normalisation routine"/> |
| 67 <param argument="--q" type="integer" value="30" min="0" label="Cutoff average Q score for aligned reads"/> | 67 <param argument="--q" type="integer" value="30" min="0" label="Cutoff average Q score for aligned reads"/> |
| 68 <param argument="--qscore1min" type="float" min="0.0" value="0.4" max="1.0" label="min decile for normalising from Dam array"/> | 68 <param argument="--qscore1min" type="float" min="0.0" value="0.4" max="1.0" label="min decile for normalising from Dam array"/> |
| 69 <param argument="--qscore1max" type="float" min="0.0" value="1.0" max="1.0" label="max decile for normalising from Dam array"/> | 69 <param argument="--qscore1max" type="float" min="0.0" value="1.0" max="1.0" label="max decile for normalising from Dam array"/> |
| 70 <param argument="--qscore2max" type="float" min="0.0" value="1.0" max="1.0" label="max decile for normalising from fusion-protein array"/> | 70 <param argument="--qscore2max" type="float" min="0.0" value="0.9" max="1.0" label="max decile for normalising from fusion-protein array"/> |
| 71 </inputs> | 71 </inputs> |
| 72 <outputs> | 72 <outputs> |
| 73 <data name="output_ratio" format="bed" from_work_dir="fusion.output" label="DAM-fusion vs Dam-only ratio"> | 73 <data name="output_ratio" format="bed" from_work_dir="fusion.output" label="DAM-fusion vs Dam-only ratio"> |
| 74 <change_format> | 74 <change_format> |
| 75 <when input="output_format" value="gff" format="gff" /> | 75 <when input="output_format" value="gff" format="gff" /> |