From 99878b134bdfd2c69064f29ed09890106cf6717b Mon Sep 17 00:00:00 2001 From: Matiss Ozols Date: Wed, 10 Jul 2024 14:11:05 +0100 Subject: [PATCH] added --- assets/deploy_scripts/sanger_module_files/1.6.1 | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/assets/deploy_scripts/sanger_module_files/1.6.1 b/assets/deploy_scripts/sanger_module_files/1.6.1 index 04dfddf..ec3606c 100644 --- a/assets/deploy_scripts/sanger_module_files/1.6.1 +++ b/assets/deploy_scripts/sanger_module_files/1.6.1 @@ -6,7 +6,7 @@ set version [file tail [module-info version [module-info name]]] proc ModulesHelp { } { global version - puts stderr "YASCP (Yet Another Single Cell (scRNA) Pieline: https://github.com/wtsi-hgi/yascp) is a nextflow pipeline that QCs the scRNA Cellranger data by removing ambient RNA, deconvoluting donors, assigning celltypes, analysing concordances vs expected genotypes. IMPROVEMENTS: 1) Added support for running cellbender with different parameters. 2) Citeseq, VDJ data integrations using Surat integration, 3) You can now only run only the cellbender step 4) Have added additional 5 doublet detection methods 5) Can provide your own Azimuth and Celltypist references 6) You can now only run the doublet detection step" + puts stderr "YASCP (Yet Another Single Cell (scRNA) Pieline: https://github.com/wtsi-hgi/yascp) is a nextflow pipeline that QCs the scRNA Cellranger data by removing ambient RNA, deconvoluting donors, assigning celltypes, analysing concordances vs expected genotypes. IMPROVEMENTS: 1) Improved pipeline logic and bug fixes" puts stderr "" puts stderr "Yascp module has been set to run in multiple modes:" puts stderr " *yascp -v or yascp -h :will describe the checkout tag used." @@ -25,7 +25,7 @@ proc ModulesHelp { } { } module-whatis "Yascp Version: $version" -module-whatis "Yascp version $version is a single cell (scRNA) processing pipeline that takes care of donor deconvolution, ambient rna removal, celltype assignment, integration, clustering and cluster assesments and data qc: yascp (https://github.com/wtsi-hgi/yascp)" +#//module-whatis "Yascp version $version is a single cell (scRNA) processing pipeline that takes care of donor deconvolution, ambient rna removal, celltype assignment, integration, clustering and cluster assesments and data qc: yascp (https://github.com/wtsi-hgi/yascp)" set install /software/hgi/pipelines/yascp_versions/yascp_v1.6.1