# HG changeset patch # User ebi-gxa # Date 1574680089 18000 # Node ID c4607a42113ecbf3d305d3b5b9d0b67b21d5427a # Parent df80f3d2f9d479cd655fdbfb33f2f0fbfc7ad4c6 planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 0463f230d18201c740851d72e31a5024f391207f diff -r df80f3d2f9d4 -r c4607a42113e seurat_macros.xml --- a/seurat_macros.xml Wed Apr 03 11:15:42 2019 -0400 +++ b/seurat_macros.xml Mon Nov 25 06:08:09 2019 -0500 @@ -1,34 +1,110 @@ - - 0.0.5 - + 0.0.6 + 3.1.1 seurat-scripts - /dev/null | grep -v -i "WARNING: ") ]]> + + + + + + + + + + + + + + + + + + + + + + + + + #if $input.format == "anndata" + --input-object-file '$input.anndata_file' --input-format anndata + #else if $input.format == "loom" + --input-object-file '$input.loom_file' --input-format loom + #else if $input.format == "rds_seurat" + --input-object-file '$input.rds_seurat_file' --input-format seurat + #else if $input.format == "rds_sce" + --input-object-file '$input.rds_sce_file' --input-format singlecellexperiment + #end if + + + + + + + + + + + + + format == 'loom' + + + format == 'rds_seurat' + + + format == 'rds_sce' + + + + + #if $format == "anndata" + --output-object-file '$anndata_file' --output-format anndata + #else if $format == "loom" + --output-object-file seurat_obj.loom --output-format loom + #else if $format == "rds_seurat" + --output-object-file '$rds_seurat_file' --output-format seurat + #else if $format == "rds_sce" + --output-object-file '$rds_sce_file' --output-format singlecellexperiment + #end if + + - + + + diff -r df80f3d2f9d4 -r c4607a42113e seurat_run_pca.xml --- a/seurat_run_pca.xml Wed Apr 03 11:15:42 2019 -0400 +++ b/seurat_run_pca.xml Mon Nov 25 06:08:09 2019 -0500 @@ -1,4 +1,4 @@ - + run a PCA dimensionality reduction seurat_macros.xml @@ -8,32 +8,37 @@ - - + + + + - + - + @@ -42,7 +47,7 @@ - +