Mercurial > repos > ebi-gxa > scanpy_integrate_mnn
comparison scanpy-integrate-mnn.xml @ 5:b202e078a83f draft
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit 858a2398f1dbbd60110867c593c237358c794615-dirty"
| author | ebi-gxa |
|---|---|
| date | Mon, 12 Apr 2021 14:43:24 +0000 |
| parents | 7ae183da3f07 |
| children | 5bb009f95e03 |
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| 4:eb30e34367b1 | 5:b202e078a83f |
|---|---|
| 1 <?xml version="1.0" encoding="utf-8"?> | 1 <?xml version="1.0" encoding="utf-8"?> |
| 2 <tool id="scanpy_integrate_mnn" name="Scanpy MNN" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@"> | 2 <tool id="scanpy_integrate_mnn" name="Scanpy MNN" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@"> |
| 3 <description>correct batch effects by matching mutual nearest neighbors</description> | 3 <description>correct batch effects by matching mutual nearest neighbors</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"/> |
| 92 | 92 |
| 93 <outputs> | 93 <outputs> |
| 94 <expand macro="output_data_obj" description="Batch-corrected for ${batch_key}"/> | 94 <expand macro="output_data_obj" description="Batch-corrected for ${batch_key}"/> |
| 95 </outputs> | 95 </outputs> |
| 96 | 96 |
| 97 <tests> | 97 <!--<tests> |
| 98 <test> | 98 <test> |
| 99 <param name="input_obj_file" value="find_cluster.h5"/> | 99 <param name="input_obj_file" value="find_cluster.h5"/> |
| 100 <param name="input_format" value="anndata"/> | 100 <param name="input_format" value="anndata"/> |
| 101 <param name="output_format" value="anndata"/> | 101 <param name="output_format" value="anndata"/> |
| 102 <param name="batch_key" value="louvain"/> | 102 <param name="batch_key" value="louvain"/> |
| 106 <param name="input_obj_file" value="find_cluster.h5"/> | 106 <param name="input_obj_file" value="find_cluster.h5"/> |
| 107 <param name="input_format" value="anndata"/> | 107 <param name="input_format" value="anndata"/> |
| 108 <param name="output_format" value="anndata"/> | 108 <param name="output_format" value="anndata"/> |
| 109 <output name="output_h5" file="mnn_copy.h5" ftype="h5" compare="sim_size"/> | 109 <output name="output_h5" file="mnn_copy.h5" ftype="h5" compare="sim_size"/> |
| 110 </test> | 110 </test> |
| 111 </tests> | 111 </tests>--> |
| 112 | 112 |
| 113 <help><![CDATA[ | 113 <help><![CDATA[ |
| 114 .. class:: infomark | 114 .. class:: infomark |
| 115 | 115 |
| 116 **What it does** | 116 **What it does** |