# HG changeset patch
# User iuc
# Date 1761426039 0
# Node ID f86862ab76fb380bb4a2ae79d47a218d271cf03f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/muon commit fef10e0d450018d1e6ba4cbbda76c7686edc8aae
diff -r 000000000000 -r f86862ab76fb macros.xml
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+++ b/macros.xml Sat Oct 25 21:00:39 2025 +0000
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+ 0.1.7
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+ 23.0
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+ muon
+ leidenalg
+ louvain
+ mofapy2
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+ muon
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+ 10.1186/s13059-021-02577-8
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+ '$hidden_output' &&
+python '$script_file' >> '$hidden_output' &&
+touch 'mudata_info.txt' &&
+cat 'mudata_info.txt' @CMD_prettify_stdout@
+ ]]>
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+ advanced_common['show_log']
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diff -r 000000000000 -r f86862ab76fb preprocess_muon.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/preprocess_muon.xml Sat Oct 25 21:00:39 2025 +0000
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+ macros.xml
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+ `__
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+Filter: Filter variables (features) ('muon.pp.filter_var')
+==========================================================
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+ Filter variables (features, e.g. genes) in-place using any column in .var or row in .X.
+
+ More details on the `muon documentation
+ `__
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+Subset: Subset observations (samples or cells) in-place taking observations present only in all modalities ('muon.pp.intersect_obs')
+====================================================================================================================================
+
+ Subset observations (samples or cells) in-place taking observations present only in all modalities.
+
+ More details on the `muon documentation
+ `__
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+Normalize: Normalize observations to unit L2 norm ('muon.pp.l2norm')
+====================================================================
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+ Normalize observations to unit L2 norm.
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+ More details on the `muon documentation
+ `__
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+Search: Multimodal nearest neighbor search ('muon.pp.neighbors')
+================================================================
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+ Multimodal nearest neighbor search by implementing the multimodal nearest neighbor method of Hao et al. and Swanson et al.
+ The neighbor search efficiency on this heavily relies on UMAP. In particular, you may want to decrease
+ n_multineighbors for large data set to avoid excessive peak memory use. To achieve results as close as possible
+ to the Seurat implementation, observations must be normalized to unit L2 norm prior to running per-modality
+ nearest-neighbor search.
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+ More details on the `muon documentation
+ `__
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+ ]]>
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+
\ No newline at end of file