From 893c81ffe5e6b99f18a02e5a2af457e3dbb82409 Mon Sep 17 00:00:00 2001 From: Stefano Beretta Date: Fri, 6 May 2022 12:47:34 +0000 Subject: [PATCH] Update README.md --- README.md | 9 +++++++-- 1 file changed, 7 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index 4319a5d..be45f40 100644 --- a/README.md +++ b/README.md @@ -16,5 +16,10 @@ _Science Translational Medicine_ 2022. ### Analyses ### -Single-cell (from 10X Genomics) analysis of 9 tumoral samples.
- +Single-cell (from 10X Genomics) analysis of 9 tumoral samples: +- _1_fastMNN_analysis.R_: standard analysis with Seurat (v3.2.2) on merged samples and batch removal with FastMMN, and also on cell-type sepcific subsets. +- _2_fastMNN_DGE.R_: differential gene expression analysis among treaments on the Full dataset and on cell-type specific subsets. +- _3_macroGTvsCtrlPost.R_: differential gene expression analysis on macropahges merging the 2 treatment condisions (high and low) vs. control, with also post-analyses (GSEA and enrichment). +- _4_monocle.R_: pseudotime analysis with Monocle3. +- _5_prepareSCVelo.R_: script to prepare input file for velocity analysis with scVelo. +- _6_prepare_plots.R_: script to produce plots of the paper. -- GitLab