readBiokitAsDGEList: Read a Biokit output directory into a DGEList object for...

In bedapub/ribiosNGS: Utilities for next-generation sequencing data analysis in ribios

Read a Biokit output directory into a DGEList object for downstream analysis

Description

Read a Biokit output directory into a DGEList object for downstream analysis

Usage

readBiokitAsDGEList(
  dir,
  anno = c("refseq", "ensembl"),
  useCollapsedData = FALSE
)

Arguments

dir	Biokit output directory
anno	Annotation type, either refseq or ensembl is supported
useCollapsedData	Logical, FALSE as default. If set to TRUE, counts are collapsed by gene symbols. This is not recommended because gene symbols are not stable identifiers. The function depends on gct (gct-ens) and annot directories of biokit output directory.

Examples

##... (TODO: add a mock output directory in testdata)

bedapub/ribiosNGS documentation built on Feb. 10, 2025, 12:34 a.m.