importFeatureCounts: Import from FeatureCounts
In GenomicTools.fileHandler: File Handlers for Genomic Data Analysis

Description Usage Arguments Details Value Author(s) Examples

This functions imports the output from FeatureCounts

1	importFeatureCounts(file, skip = 0, headerLine = 2)

`file`	Character, file name
`skip`	Number of lines to skip from txt file
`headerLine`	Linenumber that contains the header information

FeatureCounts produces two files, the txt that contain the expression values and then the summary that containts all the information about the mapping statistics. This function imports both and stores them in a corresponding list.

A list with expValues, geneInfo and summary

Daniel Fischer

 # Define here the location on HDD for the example file
   fpath <- system.file("extdata","featureCountsExample.txt", package="GenomicTools.fileHandler")
 # Import the example featureCounts file  
   fcFile <- importFeatureCounts(file=fpath)