mc_compute_fp: Compute metacell gene footprint

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

Compute metacell gene footprint

Description

The footprint is defined as the size-normalized geometric mena of the number of umis per metacells, dvided by the median over all metacells.

Usage

mc_compute_fp(mc, us, norm_by_mc_size = T, min_total_umi = 10)

Arguments

mc	a metacell object
us	umi matrix
norm_by_mc_size	normalize by mean total umis and then multiply by median mean mc size (or at least 1000). This means umis per 1000 molecules.
min_total_umi	consider genes with at least min_total_umi total umis

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