Mercurial > repos > ebi-gxa > decoupler_pseudobulk
comparison decoupler_pseudobulk.xml @ 14:ef054892d47f draft default tip
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 05690508f6fc11cfc14213efedfd2bca5bb6040e
| author | ebi-gxa |
|---|---|
| date | Wed, 30 Oct 2024 14:26:40 +0000 |
| parents | a559be56720c |
| children |
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| 13:599ad3dce864 | 14:ef054892d47f |
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| 1 <tool id="decoupler_pseudobulk" name="Decoupler pseudo-bulk" version="1.4.0+galaxy7" profile="20.05"> | 1 <tool id="decoupler_pseudobulk" name="Decoupler pseudo-bulk" version="1.4.0+galaxy8" profile="20.05"> |
| 2 <description>aggregates single cell RNA-seq data for running bulk RNA-seq methods</description> | 2 <description>aggregates single cell RNA-seq data for running bulk RNA-seq methods</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="1.4.0">decoupler</requirement> | 4 <requirement type="package" version="1.4.0">decoupler</requirement> |
| 5 </requirements> | 5 </requirements> |
| 6 <command detect_errors="exit_code"><![CDATA[ | 6 <command detect_errors="exit_code"><![CDATA[ |
| 7 mkdir deseq_output_dir && | 7 mkdir deseq_output_dir && |
| 8 mkdir plots_output_dir && | 8 mkdir plots_output_dir && |
| 9 python '$__tool_directory__/decoupler_pseudobulk.py' $input_file | 9 python '$__tool_directory__/decoupler_pseudobulk.py' '$input_file' |
| 10 #if $adata_obs_fields_to_merge: | 10 #if $adata_obs_fields_to_merge: |
| 11 --adata_obs_fields_to_merge '$adata_obs_fields_to_merge' | 11 --adata_obs_fields_to_merge '$adata_obs_fields_to_merge' |
| 12 #end if | 12 #end if |
| 13 --groupby '$groupby' | 13 --groupby '$groupby' |
| 14 --sample_key '$sample_key' | 14 --sample_key '$sample_key' |