Mercurial > repos > timpalpant > java_genomics_toolkit
comparison galaxy-conf/PredictFAIRESignal.xml @ 15:3e477c7e0e73 draft
Update normalization tools to allow normalizing by chromosome (Z-scorer, scale, etc.) Add new tool to convert any interval file to Bed format. Miscellaneous bug fixes.
| author | timpalpant |
|---|---|
| date | Sat, 09 Jun 2012 16:03:59 -0400 |
| parents | 81d5b81fb3c2 |
| children |
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| 14:f58706d4d421 | 15:3e477c7e0e73 |
|---|---|
| 1 <tool id="PredictFAIRE" name="Predict FAIRE signal" version="1.0.0"> | 1 <tool id="PredictFAIRE" name="Predict FAIRE signal" version="1.1.0"> |
| 2 <description>from nucleosome occupancy</description> | 2 <description>from nucleosome occupancy</description> |
| 3 <command interpreter="sh">galaxyToolRunner.sh nucleosomes.PredictFAIRESignal -i $input -s $sonication -c $crosslinking -x $extend -o $output</command> | 3 <command interpreter="sh">galaxyToolRunner.sh nucleosomes.PredictFAIRESignal -i $input -s $sonication -c $crosslinking -x $extend -o $output</command> |
| 4 <inputs> | 4 <inputs> |
| 5 <param format="bigwig,wig" name="input" type="data" label="Nucleosome occupancy data" /> | 5 <param format="bigwig,wig" name="input" type="data" label="Nucleosome occupancy data" /> |
| 6 <param format="tabular" name="sonication" type="data" label="Sonication fragment length distribution" /> | 6 <param format="tabular" name="sonication" type="data" label="Sonication fragment length distribution" /> |
| 7 <param name="crosslinking" type="float" value="1.0" label="Crosslinking coefficient" /> | 7 <param name="crosslinking" type="float" value="1.0" label="Crosslinking coefficient" /> |
| 8 <param name="extend" type="integer" value="250" label="In silico read extension (bp)" /> | 8 <param name="extend" type="integer" value="250" label="In silico read extension (-1 for paired-end mode)" /> |
| 9 </inputs> | 9 </inputs> |
| 10 <outputs> | 10 <outputs> |
| 11 <data format="wig" name="output" metadata_source="input" /> | 11 <data format="wig" name="output" metadata_source="input" /> |
| 12 </outputs> | 12 </outputs> |
| 13 | 13 |