filter_rseq: Filter RNA-seq data for minimumnumber of counts in a class

In jvwong/emRNASeq: Utilities for RNA sequencing analysis

Description

Takes in a SummarizedExperiment object containing RNA-seq data and filters for low counts (> 1 cpm in a minimum number of samples equal to the smallest group size)

Usage

filter_rseq(se, baseline, test, min_counts = 1)

Arguments

se	A SummarizedExperiment
baseline	character for the 'baseline' class
test	character for the 'test' class. DE testing will be performed relative to
min_counts	The minimum threshold in counts per million for each sample

Value

a filtered DGEList

jvwong/emRNASeq documentation built on May 20, 2019, 5:21 a.m.