| Previous changeset 13:5c3ebe2adc77 (2024-03-14) Next changeset 15:ca086f24422f (2024-07-31) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/scanpy/ commit 9d49b2a98de059ae9a053dc1c5a23537cf0311de |
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modified:
inspect.xml macros.xml |
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| diff -r 5c3ebe2adc77 -r f54f0f0598ad inspect.xml --- a/inspect.xml Thu Mar 14 15:39:51 2024 +0000 +++ b/inspect.xml Sat May 18 18:33:09 2024 +0000 |
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| @@ -893,7 +893,7 @@ - pct_dropout_by_{expr_type} (e.g. "pct_dropout_by_counts", percentage of cells this feature does not appear in) More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.calculate_qc_metrics.html>`__ +<https://scanpy.readthedocs.io/en/stable/api/scanpy.pp.calculate_qc_metrics.html>`__ Compute a neighborhood graph of observations, using `pp.neighbors` ================================================================== @@ -912,7 +912,7 @@ This data are stored in the unstructured annotation (uns) and can be accessed using the inspect tool for AnnData objects More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.neighbors.html>`__ +<https://scanpy.readthedocs.io/en/stable/api/generated/scanpy.pp.neighbors.html>`__ Score a set of genes, using `tl.score_genes` ============================================ @@ -925,7 +925,7 @@ for Scanpy by Davide Cittaro. More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.tl.score_genes.html>`__ +<https://scanpy.readthedocs.io/en/stable/api/scanpy.tl.score_genes.html>`__ Score cell cycle genes, using `tl.score_genes_cell_cycle` ========================================================= @@ -935,7 +935,7 @@ `score_genes` for more explanation. More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.tl.score_genes_cell_cycle.html>`__ +<https://scanpy.readthedocs.io/en/stable/api/scanpy.tl.score_genes_cell_cycle.html>`__ Rank genes for characterizing groups, using `tl.rank_genes_groups` ================================================================== @@ -951,7 +951,7 @@ This data are stored in the unstructured annotation (uns) and can be accessed using the inspect tool for AnnData objects More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.tl.rank_genes_groups.html>`__ +<https://scanpy.readthedocs.io/en/stable/api/scanpy.tl.rank_genes_groups.html>`__ Calculate an overlap score between data-deriven marker genes and provided markers (`tl.marker_gene_overlap`) @@ -964,13 +964,13 @@ ========================================= More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.log1p.html>`__ +<https://scanpy.readthedocs.io/en/stable/api/scanpy.pp.log1p.html>`__ Scale data to unit variance and zero mean (`pp.scale`) ====================================================== More details on the `scanpy documentation -<https://icb-scanpy.readthedocs-hosted.com/en/stable/api/scanpy.pp.scale.html>`__ +<https://scanpy.readthedocs.io/en/stable/api/scanpy.pp.scale.html>`__ Computes the square root the data matrix (`pp.sqrt`) ==================================================== |
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| diff -r 5c3ebe2adc77 -r f54f0f0598ad macros.xml --- a/macros.xml Thu Mar 14 15:39:51 2024 +0000 +++ b/macros.xml Sat May 18 18:33:09 2024 +0000 |
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| @@ -1,7 +1,7 @@ <macros> <token name="@TOOL_VERSION@">1.9.6</token> - <token name="@VERSION_SUFFIX@">2</token> - <token name="@profile@">22.05</token> + <token name="@VERSION_SUFFIX@">3</token> + <token name="@profile@">21.09</token> <xml name="requirements"> <requirements> <requirement type="package" version="@TOOL_VERSION@">scanpy</requirement> |