[Bioc-sig-seq] rtracklayer - suppress track line

[Chris Seidel]

Well, even if you can't suppress tracklines during bedGraph creation in
rtracklayer, it looks like UCSC has updated their bigWig creation
utility to skip track lines. (info courtesy of Jeffrey Johnston).

-Chris

From:
http://genomewiki.ucsc.edu/index.php/Genome_Browser_Software_Features#28_June.2C_2010_v234

28 June, 2010 v234

    * PNG 32-bit color for multiWiggles.
    * More tweaks due to git source control switch.
    * Ongoing work on multiWiggles.
    * New CGI: hgTrackRender.
    * Skip browser and track lines at the beginning of bedGraphs and
wigs when creating bigWigs. 

> -----Original Message-----
> From: bioc-sig-sequencing-bounces at r-project.org 
> [mailto:bioc-sig-sequencing-bounces at r-project.org] On Behalf 
> Of Chris Seidel
> Sent: Friday, August 06, 2010 10:12 AM
> To: bioc-sig-sequencing at r-project.org
> Subject: [Bioc-sig-seq] rtracklayer - suppress track line
> 
> 
> Hello,
> 
> I've been using rtracklayer to make bedGraph files from 
> RLElist objects (which works wonderfully). e.g. a little pseudo code:
> 
> ip <- RLElist(myBigFatChipSEQpipelineResults)
> export(ip, "ip.bedGraph")
> 
> I then convert the bedGraph files to bigWigs using the 
> bedGraphToBigWig command line utility from UCSC. The bigWigs 
> are binary versions of wig or bedGraph files that are created 
> from wig or bedGraph data that does not have an initial track 
> line. However, rtracklayer puts an initial "track line" in 
> each file by default, that has to be removed for bigWig creation.
> 
> My question is: how do I suppress having a track line in 
> exported bedGraph data?
> 
> -Chris
> 
> sessionInfo()
> R version 2.11.1
> rtracklayer_1.8.1