Mercurial > repos > ebi-gxa > scanpy_integrate_mnn
comparison scanpy-integrate-mnn.xml @ 14:ff6decc0f432 draft default tip
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit ee197a80b2d591c393e1662854bc119b2ecab11e-dirty
| author | ebi-gxa |
|---|---|
| date | Tue, 27 Feb 2024 16:43:26 +0000 |
| parents | e9788746e0f6 |
| children |
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| 13:e9788746e0f6 | 14:ff6decc0f432 |
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| 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@+galaxy93" 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"/> |
| 100 <test> | 100 <test> |
| 101 <param name="input_obj_file" value="find_cluster.h5"/> | 101 <param name="input_obj_file" value="find_cluster.h5"/> |
| 102 <param name="input_format" value="anndata"/> | 102 <param name="input_format" value="anndata"/> |
| 103 <param name="output_format" value="anndata"/> | 103 <param name="output_format" value="anndata"/> |
| 104 <param name="batch_key" value="louvain"/> | 104 <param name="batch_key" value="louvain"/> |
| 105 <output name="output_h5" file="mnn.h5" ftype="h5" compare="sim_size"/> | 105 <output name="output_h5" file="mnn.h5" ftype="h5" compare="sim_size" delta_frac="0.1"/> |
| 106 </test> | 106 </test> |
| 107 <test> | 107 <test> |
| 108 <param name="input_obj_file" value="find_cluster.h5"/> | 108 <param name="input_obj_file" value="find_cluster.h5"/> |
| 109 <param name="input_format" value="anndata"/> | 109 <param name="input_format" value="anndata"/> |
| 110 <param name="output_format" value="anndata"/> | 110 <param name="output_format" value="anndata"/> |
| 111 <output name="output_h5" file="mnn_copy.h5" ftype="h5" compare="sim_size"/> | 111 <output name="output_h5" file="mnn_copy.h5" ftype="h5" compare="sim_size" delta_frac="0.1"/> |
| 112 </test> | 112 </test> |
| 113 </tests>--> | 113 </tests>--> |
| 114 | 114 |
| 115 <help><![CDATA[ | 115 <help><![CDATA[ |
| 116 .. class:: infomark | 116 .. class:: infomark |