summarizeToGene {tximeta}R Documentation

Summarize transcript-level quantifications to gene-level

Description

This function uses the tximport package to summarize counts, abundances and effective lengths from transcript-level to gene-level. It automatically will access the relevant TxDb (by either finding it in the BiocFileCache or by building it from an ftp location).

Usage

summarizeToGene(se, varReduce = FALSE, ...)

Arguments

se

a SummarizedExperiment produced by tximeta

varReduce

whether to reduce per-sample inferential replicates information into a matrix of sample variances variance (default FALSE)

...

arguments passed to tximport

Value

a SummarizedExperiment with summarized quantifications

Examples


example(tximeta)
gse <- summarizeToGene(se)


[Package tximeta version 1.0.3 Index]