Write bedGraph format tracks for UCSC genome browser

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

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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

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