From f5485961ae67c54654b9e8056a3b15679bc197ba Mon Sep 17 00:00:00 2001 From: Giorgia Giacomini Date: Wed, 10 Jan 2024 14:07:16 +0000 Subject: [PATCH] Update README.md --- README.md | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index d97db81..25acd22 100644 --- a/README.md +++ b/README.md @@ -7,7 +7,7 @@ Amodio G, Giacomini G, Boeri L, et al. **T cell exhaustion and senescence signat scRNAseq analysis was performed using a standard [Seurat](https://satijalab.org/seurat/) pipeline that includes the following steps starting from a minimal object after loading of 10X data to markers identification: - Preprocessing and cell filtering - - Each sample was pre-processed and cells with mitochondrial RNA percentages higher than 10 and a number of features <1200 or >6000, were filtered out. + - Each sample was pre-processed and cells with mitochondrial RNA percentages higher than 10 and a number of features <1200 or >6000, were filtered out. Samples were merged into a single Seurat dataset - Normalization - Default Seurat settings [(NormalizeData function)](https://satijalab.org/seurat/reference/normalizedata) - Scaling: @@ -21,6 +21,8 @@ scRNAseq analysis was performed using a standard [Seurat](https://satijalab.org/ ### Directories and Files ### +- sampleSheet.csv: names of samples and corresponding conditions + - **Script**: R scripts used for the analyses - `1_PreProcessing_Data.R`: Preprocessing, cell filtering and Full object creation - `2_Infertility_scRNAseq_analysis.R`: -- GitLab