retrieveCDNA: Retrieve the cDNA transcript sequence for a...

In mikelove/tximeta: Transcript Quantification Import with Automatic Metadata

Retrieve the cDNA transcript sequence for a SummarizedExperiment

Description

This helper function retrieves the cDNA sequence of the transcripts used for expression quantification. This function either downloads or loads the transcript sequence from cache, it does not re-order or check against the rows of the SummarizedExperiment (which could be already summarized to genes for example).

Usage

retrieveCDNA(se, quiet = FALSE)

Arguments

se	the SummarizedExperiment
quiet	logical, suppress messages

Value

a DNAStringSet object

Examples

## Not run: 
# this example is not run because it requires access to Ensembl ftp
example(tximeta)
cdna <- retrieveCDNA(se)

## End(Not run)

mikelove/tximeta documentation built on Feb. 26, 2024, 4:32 a.m.