load_mtx: Load a triple of gene names, cell names, gene x cell counts...

In trichelab/velocessor: The world's dumbest single-cell RNA velocity calculator and loader

Description

The returned matrix is a dgCMatrix as used by (e.g.) SingleCellExperiment. This function is useful when processing data from (e.g.) kallisto|bustools, for example, CITE-seq data processed with KITE, or when comparing uniquely mapped vs. multimapped counts, as one might do for repetitive elements.

Usage

load_mtx(path = ".", verbose = TRUE, frags = NULL, splt = FALSE, spltcol = 3)

Arguments

path	where the counts files (features, barcodes, mtx) (".")
verbose	be verbose? (TRUE)
frags	optional patterns to scan for features, barcodes, matrix
splt	split by feature type? (FALSE)
spltcol	if splitting by feature type, which column to use? (3)

Details

This function works fine on gzipped files (tested on a 180K x 2761K matrix).

Value

       a dgCMatrix 

trichelab/velocessor documentation built on Jan. 5, 2022, 6:27 p.m.