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Update anndata - galaxy version 1 #6644

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Update anndata - galaxy version 1 #6644

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b58f8d1
optional new column for rename cat
nilchia Dec 16, 2024
14d2928
flag gene with different keys
nilchia Dec 16, 2024
eebcd91
Merge branch 'galaxyproject:main' into anndata_g1
nilchia Dec 17, 2024
6aabbf7
inspect new order
nilchia Dec 17, 2024
ddc5609
add copying .obs, .uns, embed, rename obs and rename var
pavanvidem Dec 20, 2024
880ac65
remove filter function
pavanvidem Dec 20, 2024
3df691b
remove filter tests
pavanvidem Dec 20, 2024
dda9365
add copy layers and copy .X
pavanvidem Dec 20, 2024
8bcbecd
typo function name
pavanvidem Dec 20, 2024
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4 changes: 2 additions & 2 deletions tools/anndata/inspect.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -87,10 +87,10 @@ pd.DataFrame(adata.varm['PCs']).to_csv("$varm_PCs", sep="\t", index = False)
<conditional name="inspect">
<param name="info" type="select" label="What to inspect?">
<option value="general">General information about the object</option>
<option value="X">The full data matrix</option>
<option value="chunk_X">A chunk of the data matrix</option>
<option value="obs">Key-indexed observations annotation (obs)</option>
<option value="var">Key-indexed annotation of variables/features (var)</option>
<option value="X">The full data matrix</option>
<option value="chunk_X">A chunk of the data matrix</option>
<option value="uns">Unstructured annotation (uns)</option>
<option value="obsm">Multi-dimensional observations annotation (obsm)</option>
<option value="varm">Multi-dimensional variables annotation (varm)</option>
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2 changes: 1 addition & 1 deletion tools/anndata/macros.xml
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@@ -1,6 +1,6 @@
<macros>
<token name="@TOOL_VERSION@">0.10.9</token>
<token name="@VERSION_SUFFIX@">0</token>
<token name="@VERSION_SUFFIX@">1</token>
<token name="@PROFILE@">21.09</token>
<xml name="requirements">
<requirements>
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