Mercurial > repos > ebi-gxa > scanpy_find_cluster
comparison scanpy-find-cluster.xml @ 29:2ccd9f9e2cd0 draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit 6c9d530aa653101e9e21804393ec11f38cddf027-dirty
author | ebi-gxa |
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date | Thu, 16 Feb 2023 13:28:44 +0000 |
parents | 1e820072e8f1 |
children | d19920419c78 |
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28:35caf3c27c91 | 29:2ccd9f9e2cd0 |
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1 <?xml version="1.0" encoding="utf-8"?> | 1 <?xml version="1.0" encoding="utf-8"?> |
2 <tool id="scanpy_find_cluster" name="Scanpy FindCluster" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@"> | 2 <tool id="scanpy_find_cluster" name="Scanpy FindCluster" version="@TOOL_VERSION@+galaxy9" profile="@PROFILE@"> |
3 <description>based on community detection on KNN graph</description> | 3 <description>based on community detection on KNN graph</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 <tests> | 92 <tests> |
93 <test> | 93 <test> |
94 <param name="input_obj_file" value="compute_graph.h5"/> | 94 <param name="input_obj_file" value="compute_graph.h5"/> |
95 <param name="input_format" value="anndata"/> | 95 <param name="input_format" value="anndata"/> |
96 <param name="output_format" value="anndata"/> | 96 <param name="output_format" value="anndata"/> |
97 <param name="output_txt" value="true"/> | |
98 <param name="default" value="false"/> | 97 <param name="default" value="false"/> |
99 <param name="resolution_file" value="resolution.txt"/> | 98 <param name="resolution_file" value="resolution.txt"/> |
100 <param name="random_seed" value="0"/> | 99 <param name="random_seed" value="0"/> |
101 <output name="output_h5" file="find_cluster.h5" ftype="h5" compare="sim_size"/> | 100 <output name="output_h5" file="find_cluster.h5" ftype="h5" compare="sim_size"/> |
102 <output name="output_txt" file="find_cluster.tsv" ftype="tsv"/> | 101 <output name="output_txt" file="find_cluster.tsv" ftype="tsv"/> |
103 </test> | 102 </test> |
104 <test> | 103 <test> |
105 <param name="input_obj_file" value="compute_graph.h5"/> | 104 <param name="input_obj_file" value="compute_graph.h5"/> |
106 <param name="input_format" value="anndata"/> | 105 <param name="input_format" value="anndata"/> |
107 <param name="output_format" value="anndata"/> | 106 <param name="output_format" value="anndata"/> |
108 <param name="output_txt" value="true"/> | |
109 <param name="default" value="false"/> | 107 <param name="default" value="false"/> |
110 <param name="resolution" value="1.0"/> | 108 <param name="resolution" value="1.0"/> |
111 <param name="random_seed" value="0"/> | 109 <param name="random_seed" value="0"/> |
112 <output name="output_h5" file="find_cluster.h5" ftype="h5" compare="sim_size"/> | 110 <output name="output_h5" file="find_cluster.h5" ftype="h5" compare="sim_size"/> |
113 <output name="output_txt" file="find_cluster.tsv" ftype="tsv"/> | 111 <output name="output_txt" file="find_cluster.tsv" ftype="tsv"/> |
114 </test> | 112 </test> |
115 <test> | 113 <test> |
116 <param name="input_obj_file" value="compute_graph.h5"/> | 114 <param name="input_obj_file" value="compute_graph.h5"/> |
117 <param name="input_format" value="anndata"/> | 115 <param name="input_format" value="anndata"/> |
118 <param name="output_format" value="anndata"/> | 116 <param name="output_format" value="anndata"/> |
119 <param name="output_txt" value="true"/> | |
120 <param name="default" value="false"/> | 117 <param name="default" value="false"/> |
121 <param name="method" value="louvain"/> | 118 <param name="method" value="louvain"/> |
122 <param name="resolution" value="1.0"/> | 119 <param name="resolution" value="1.0"/> |
123 <param name="key_added" value="METHOD_RESOLUTION"/> | 120 <param name="key_added" value="METHOD_RESOLUTION"/> |
124 <param name="random_seed" value="0"/> | 121 <param name="random_seed" value="0"/> |