filter_genes: Filter out lowly expressed genes

Description Usage Arguments Value

View source: R/filter.R

Description

This function removes genes that are lowly expressed. The droplets are split into the test set and debris set, and the Counts Per Million mapped reads (CPM) are calculated for each. Then, only genes that have a CPM of at least cpm_thresh in both the test set and debris set are kept.

Usage

1
filter_genes(x, cpm_thresh = 10, verbose = FALSE)

Arguments

x

An SCE object.

cpm_thresh

The minimum CPM threshold for removing genes.

verbose

verbosity

Value

An SCE object


diem documentation built on Nov. 16, 2019, 1:08 a.m.