write.bedGraph: Write bedGraph format tracks for UCSC genome browser

In ACME: Algorithms for Calculating Microarray Enrichment (ACME)

Description

Generate bedGraph format files for the UCSC genome browser. This function will write the bedGraph files associated with a aGFFcalc object. There will be either one or two files (default two) representing the raw data and the calculated data (which is output as -log10(val) for visualization purposes for EACH sample).

Usage

write.bedGraph(x, raw = TRUE, vals = TRUE, directory = ".")

Arguments

x	An ACMESet or ACMECalcSet object
raw	Boolean. Create a file for the raw data?
vals	Boolean. Create a file for the calculated p-values?
directory	Give a directory for storing the files

Author(s)

Sean Davis

Examples

data(example.agff)
write.bedGraph(example.agff)

ACME documentation built on Nov. 8, 2020, 7:51 p.m.