Hi, On Mon, Apr 30, 2012 at 12:41 PM, Peng Yu <[email protected]> wrote: > Hi, > > It says on https://cgwb.nci.nih.gov/goldenPath/help/hgTracksHelp.html, > > "When the number of lines within a requested track location exceeds > 250, the track automatically defaults to a more tightly-packed display > mode. In this situation, you can restore the track display to full > mode by narrowing the chromosomal range displayed or by using a track > filter to reduce the number of items displayed." > > In bam flle where the sequencing depth is high, it is likely to have > more 250 reads in a locus. Therefore, no matter how narrow the chrom > range is selected, there will be more than 250 reads. Does anybody > know how to filter a bam track?
How about you convert the bam to a wig-like track: http://www.biostars.org/post/show/2699/how-can-i-convert-bamsam-to-wiggle/ The downside is that you'll lose strand info, unless you create wig-like files for each strand separately. HTH, -steve -- Steve Lianoglou Graduate Student: Computational Systems Biology | Memorial Sloan-Kettering Cancer Center | Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
