Hi Yuan, As is mentioned in Example 5b here: http://genome.ucsc.edu/goldenPath/help/customTrack.html#BED, if you specify a thickStart and thickEnd, you lose colorByStrand functionality. Like you suggest, we recommend using itemRgb instead. Sorry for any inconvenience this may cause you.
Please feel free to contact the mail list again if you require further assistance. Best, Mary ------------------ Mary Goldman UCSC Bioinformatics Group On 10/11/10 3:12 AM, Yuan Mang wrote: > Hi, > > I made some bed track in which the colorByStrand is defined in the track > headline. When the items in the bed track have no more columns than the > strand, it works fine. But if I try to define thickStart and thickEnd for > each item they are not showed in color according to the colorByStrand > parameter anymore, but all in black. > For example this one will be shown in green: > track name=test colorByStrand='<0,0,255 0,255,0>' > > chr1 161916921 161916957 C>A 1 - > > while this item will be shown in black. > track name=test colorByStrand='<0,0,255 0,255,0>' > > chr1 161916921 161916957 C>A 1 - 161916955 16191695 > > Do I have to use itemRgb if I want to specify thickStart and thickEnd for > bed items? > > Thanks ahead for your help! > > Best, > Yuan > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
