gene_filter1: First filtering step

In wikiselev/SC3-old: Single-Cell Consensus Clustering

Description

Filter genes that would not contribute to clustering, because they are either expreseed or not expressed in almost all cells.

Usage

gene_filter1(d, min.cells, max.cells, min.reads)

Arguments

d	Expression matrix with rows as genes and columns as cells
min.cells	Minimum number of cells in which a given gene is expressed
max.cells	Maximum number of cells in which a given gene is expressed
min.reads	Minimum number of reads per gene per cell

Value

Filtered expression matrix in which only genes that are expressed in more than min.cells with more than min.reads reads and also are expressed in less than [total number of cells - max.cells].

Examples

gene_filter1(quake, 3, 3, 2)

wikiselev/SC3-old documentation built on May 4, 2019, 5:25 a.m.