summarizeToGene,SummarizedExperiment-method {tximeta} | R Documentation |
Summarizes abundances, counts, lengths, (and inferential replicates or variance) from transcript- to gene-level. This function operates on SummarizedExperiment objects, and will automatically access the relevant TxDb (by either finding it in the BiocFileCache or by building it from an ftp location). #' This function uses the tximport package to perform summarization, where a method is defined that works on simple lists.
## S4 method for signature 'SummarizedExperiment' summarizeToGene(object, varReduce = FALSE, ...)
object |
a SummarizedExperiment produced by |
varReduce |
whether to reduce per-sample inferential replicates
information into a matrix of sample variances |
... |
arguments passed to |
a SummarizedExperiment with summarized quantifications
example(tximeta) gse <- summarizeToGene(se)