mcell_gset_split_by_dsmat: split gene set into several modules using clustering of genes...

In tanaylab/metacell: Meta cell analysis for single cell RNA-seq data

split gene set into several modules using clustering of genes by correlation over cells downsampled umi vector

Description

split gene set into several modules using clustering of genes by correlation over cells downsampled umi vector

Usage

mcell_gset_split_by_dsmat(gset_id, mat_id, K, force = F)

Arguments

gset_id	current gene set object. Only the list of genes will be used
mat_id	scRNA matrix to use. We assume genes in the set are represented in the matrix, but if force is T we allow filtering of genes by represented matrix entry in addtion to clsutering
K	how many gene modules to generate (cutree parameter)
force	if this is T, we allow clustering usign matrix in which not all genes are represnted. This will override the existing gset will a subset of the genes!
(ENV)	scm_k_nonz_exp - to define transformation of UMIs

tanaylab/metacell documentation built on Jan. 29, 2025, 1:34 a.m.