ExportSeuratMeta: Export meta data files for RNA velocity, CellRank, Scanpy,...

In mgildea87/CVRCFunc: Functions for CVRC bioinformatics

Export meta data files for RNA velocity, CellRank, Scanpy, and other python based analysis

Description

Export meta data files for RNA velocity, CellRank, Scanpy, and other python based analysis

Usage

ExportSeuratMeta(seurat, clus_ident, sample_ident, dir = "")

Arguments

seurat	Path to Seurat .rds file
clus_ident	Identity for clusters. Normally 'seurat_clusters' but can be any identity. I generally use 'annotations' to store cluster annotations
sample_ident	Identity for samples. Genereally 'orig.ident'
dir	Directory to output .csv files

Value

.csv files with cell by embeddings and clusters. .csv file with color palette for plotting in scVelo, CellRank, etc.

mgildea87/CVRCFunc documentation built on Nov. 9, 2024, 7:39 p.m.