Mercurial > repos > haydensun > manorm
comparison manorm.xml @ 2:30cdbc4faefa draft default tip
Update galaxy tool to v1.0.1
| author | haydensun |
|---|---|
| date | Wed, 24 Jan 2018 02:42:53 -0500 |
| parents | 9cd4a30cb4f8 |
| children |
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| 1:52225f471c57 | 2:30cdbc4faefa |
|---|---|
| 1 <tool id="manorm" name="MAnorm" version="1.0"> | 1 <tool id="manorm" name="MAnorm" version="1.0.1"> |
| 2 <description>Quantitative comparison of ChIP-Seq samples</description> | 2 <description>Quantitative comparison of ChIP-Seq samples</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="1.1.2">manorm</requirement> | 4 <requirement type="package" version="1.1.3">manorm</requirement> |
| 5 </requirements> | 5 </requirements> |
| 6 <command detect_errors="exit_code"><![CDATA[ | 6 <command detect_errors="exit_code"><![CDATA[ |
| 7 manorm --p1 $p1 --p2 $p2 --r1 $r1 --r2 $r2 $s --name1 sample1 --name2 sample2 -o output_dir | 7 manorm --p1 $p1 --p2 $p2 --r1 $r1 --r2 $r2 $s --name1 sample1 --name2 sample2 -o output_dir |
| 8 #if $s1 | 8 #if $s1 |
| 9 --s1 $s1 | 9 --s1 $s1 |
| 74 </data> | 74 </data> |
| 75 <data name="sample2_output" format="tabular" label="MAnorm (sample2 result)" from_work_dir="output_dir/sample2_MAvalues.xls"> | 75 <data name="sample2_output" format="tabular" label="MAnorm (sample2 result)" from_work_dir="output_dir/sample2_MAvalues.xls"> |
| 76 <filter>s == True</filter> | 76 <filter>s == True</filter> |
| 77 </data> | 77 </data> |
| 78 <data name="sample1_biased_peaks" format="bed" label="MAnorm (sample1 biased peaks)" from_work_dir="output_dir/output_filters/sample1_M_above_*_biased_peaks.bed" /> | 78 <data name="sample1_biased_peaks" format="bed" label="MAnorm (sample1 biased peaks)" from_work_dir="output_dir/output_filters/sample1_M_above_*_biased_peaks.bed" /> |
| 79 <data name="sample2_biased_peaks" format="bed" label="MAnorm (sample2 biased peaks)" from_work_dir="output_dir/output_filters/sample1_M_below_*_biased_peaks.bed" /> | 79 <data name="sample2_biased_peaks" format="bed" label="MAnorm (sample2 biased peaks)" from_work_dir="output_dir/output_filters/sample2_M_below_*_biased_peaks.bed" /> |
| 80 <data name="unbiased_peaks" format="bed" label="MAnorm (unbiased peaks)" from_work_dir="output_dir/output_filters/sample1_vs_sample2_unbiased_peaks.bed" /> | 80 <data name="unbiased_peaks" format="bed" label="MAnorm (unbiased peaks)" from_work_dir="output_dir/output_filters/sample1_vs_sample2_unbiased_peaks.bed" /> |
| 81 <data name="m_value_track" format="wig" label="MAnorm (M values track)" from_work_dir="output_dir/output_tracks/sample1_vs_sample2_M_values.wig" /> | 81 <data name="m_value_track" format="wig" label="MAnorm (M values track)" from_work_dir="output_dir/output_tracks/sample1_vs_sample2_M_values.wig" /> |
| 82 <data name="a_value_track" format="wig" label="MAnorm (A values track)" from_work_dir="output_dir/output_tracks/sample1_vs_sample2_A_values.wig" /> | 82 <data name="a_value_track" format="wig" label="MAnorm (A values track)" from_work_dir="output_dir/output_tracks/sample1_vs_sample2_A_values.wig" /> |
| 83 <data name="p_value_track" format="wig" label="MAnorm (P values track)" from_work_dir="output_dir/output_tracks/sample1_vs_sample2_P_values.wig" /> | 83 <data name="p_value_track" format="wig" label="MAnorm (P values track)" from_work_dir="output_dir/output_tracks/sample1_vs_sample2_P_values.wig" /> |
| 84 <data name="ma_plot_before" format="png" label="MAnorm (MA plot before normalization)" from_work_dir="output_dir/output_figures/sample1_vs_sample2_MA_plot_before_normalization.png" /> | 84 <data name="ma_plot_before" format="png" label="MAnorm (MA plot before normalization)" from_work_dir="output_dir/output_figures/sample1_vs_sample2_MA_plot_before_normalization.png" /> |