readWhippetPSIfiles {GeneStructureTools}

R Documentation

Read in a list of whippet .psi.gz files and format as a data.frame

Description

Read in a list of whippet .psi.gz files and format as a data.frame

Usage

readWhippetPSIfiles(files, attribute = "Total_Reads", maxNA = NA)

Arguments

files	vector of *.psi.gz file names
attribute	which attribute from the PSI files to use (Total_Reads, Psi, CI_width)
maxNA	maximum number of NA values allowed before a site is removed

Value

data.frame with junction counts for all files

Author(s)

Beth Signal

See Also

Other whippet data processing: coordinates, diffSplicingResults, filterWhippetEvents, formatWhippetEvents, junctions, readCounts, readWhippetDIFFfiles, readWhippetDataSet, readWhippetJNCfiles, whippetTranscriptChangeSummary

Examples

whippetFiles <- list.files(system.file("extdata","whippet/",
package = "GeneStructureTools"), full.names = TRUE)
psiFiles <- whippetFiles[grep(".psi", whippetFiles)]
whippetPSI <- readWhippetPSIfiles(psiFiles)

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