summarizeToGene: Summarize estimated quantitites to gene-level

In tximport: Import and summarize transcript-level estimates for transcript- and gene-level analysis

Description

Summarizes abundances, counts, lengths, (and inferential replicates or variance) from transcript- to gene-level.

Usage

summarizeToGene(object, ...)

## S4 method for signature 'list'
summarizeToGene(
  object,
  tx2gene,
  varReduce = FALSE,
  ignoreTxVersion = FALSE,
  ignoreAfterBar = FALSE,
  countsFromAbundance = c("no", "scaledTPM", "lengthScaledTPM")
)

Arguments

object	the list of matrices of trancript-level abundances, counts, lengths produced by tximport, with a countsFromAbundance element that tells how the counts were generated.
...	additional arguments, ignored
tx2gene	see tximport
varReduce	see tximport
ignoreTxVersion	see tximport
ignoreAfterBar	see tximport
countsFromAbundance	see tximport

Value

a list of matrices of gene-level abundances, counts, lengths, (and inferential replicates or variance if inferential replicates are present).

See Also

tximport

tximport documentation built on Nov. 8, 2020, 8:20 p.m.