Mercurial > repos > ebi-gxa > scanpy_find_markers

comparison scanpy-find-markers.xml @ 16:1670af5eee46 draft

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"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit 0fc0cc467014e750dbaa6c47b528b25af0bdc0c4-dirty"
author ebi-gxa
date Wed, 07 Oct 2020 16:06:38 +0000
parents cc776860fae1
children f04dd4e5b6a7
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15:cc776860fae1 16:1670af5eee46
1 <?xml version="1.0" encoding="utf-8"?> 1 <?xml version="1.0" encoding="utf-8"?>
2 <tool id="scanpy_find_markers" name="Scanpy FindMarkers" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@"> 2 <tool id="scanpy_find_markers" name="Scanpy FindMarkers" version="@TOOL_VERSION@+galaxy2" profile="@PROFILE@">
3 <description>to find differentially expressed genes between groups</description> 3 <description>to find differentially expressed genes between groups</description>
4 <macros> 4 <macros>
5 <import>scanpy_macros2.xml</import> 5 <import>scanpy_macros2.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
12 --save diffexp.tsv 12 --save diffexp.tsv
13 #end if 13 #end if
14 --n-genes '${n_genes}' 14 --n-genes '${n_genes}'
15 #set groupby = $groupby.replace('INPUT_OBJ', $input_obj_file.__getattr__('name')) 15 #set groupby = $groupby.replace('INPUT_OBJ', $input_obj_file.__getattr__('name'))
16 --groupby '${groupby}' 16 --groupby '${groupby}'
17 #if $settings.key_added
18 #set key_added = $settings.key_added.replace('GROUPBY', $groupby.__str__)
19 --key-added '${key_added}'
20 #end if
21 #if $settings.default == "false" 17 #if $settings.default == "false"
18 #if $settings.key_added
19 #set key_added = $settings.key_added.replace('GROUPBY', $groupby.__str__)
20 --key-added '${key_added}'
21 #end if
22 --method '${settings.method}' 22 --method '${settings.method}'
23 ${settings.use_raw} 23 ${settings.use_raw}
24 ${settings.rankby_abs} 24 ${settings.rankby_abs}
25 #if $settings.groups 25 #if $settings.groups
26 --groups '${settings.groups}' 26 --groups '${settings.groups}'