Hi Michael, We appreciate your suggestion and will pass this request on to our developers.
Best, Mary ------------------ Mary Goldman UCSC Bioinformatics Group On 11/2/10 7:22 AM, Michael Lawrence wrote: > On Mon, Nov 1, 2010 at 3:41 PM, Hiram Clawson<[email protected]> wrote: > > >> Good Afternoon Michael: >> >> It isn't an error. It could be used to produce contextual zooming >> views. But that requires extra knowledge about what you would >> want to see on the higher level spans. Note slide 14 "Span" in >> this presentation: >> http://genome-test.cse.ucsc.edu/~hiram/wigglePresentation.html<http://genome-test.cse.ucsc.edu/%7Ehiram/wigglePresentation.html> >> >> Unfortunately this feature is complicated to document and explain >> and has never been used. It has been discontinued in the >> bigWig transition. Maybe I can disable it so you can get an >> error message or warning in the future. >> >> >> > Well, this definitely casts the WIG format in a different light. I think it > would have been used if it had been documented. My suggestion is to either > document it or remove it. > > Thanks, > Michael > > > > >> --Hiram >> >> ----- Original Message ----- >> From: "Michael Lawrence"<[email protected]> >> To: "Hiram Clawson"<[email protected]> >> Cc: "Michael Lawrence"<[email protected]>, [email protected] >> Sent: Monday, November 1, 2010 3:31:58 PM GMT -08:00 US/Canada Pacific >> Subject: Re: [Genome] wig with multiple blocks per chromosome >> >> >> >> >> On Mon, Nov 1, 2010 at 1:59 PM, Hiram Clawson< [email protected]> >> wrote: >> >> >> Good Afternoon Michael: >> >> You can't use different spans in the same data track for wiggle data. >> >> >> I see, I missed that part. It would be nice if the browser reported some >> sort of error or warning, rather than just omitting features. >> >> Thanks, >> Michael >> >> >> >> If your items have different sizes, use the bedGraph >> format and turn it into a bigWig file. >> http://genome.ucsc.edu/goldenPath/help/bedgraph.html >> http://genome.ucsc.edu/goldenPath/help/bigWig.html >> >> --Hiram >> >> >> >> >> Michael Lawrence wrote: >> >> >> Hi, >> >> Is the following a valid WIG file? >> >> track name="My Track" type=wiggle_0 >> fixedStep chrom=chr1 start=201491492 step=0 span=29 >> 80.3 >> fixedStep chrom=chr1 start=201491528 step=0 span=80 >> 99.5 >> >> When I upload to the genome browser, only the first interval is displayed. >> I >> can't find anywhere in the WIG format description that disallows using two >> blocks for the same chromosome: shouldn't they just be merged? >> >> Thanks, >> Michael >> >> >> > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
