Hiram, thanks for your quick reply. I already thought that it might be due to the explained compression. But then I thought I misunderstood the term "compression" in this case since the table values have more decimal places and therefore seem to be more precise.
Anyway. Thanks again! Alex Hiram Clawson wrote: > Good Morning Alex: > > The values you get from the FTP download files are the original "correct" > values. > > The values obtained from the table-browser are, as indicated, compressed > values that have a loss in resolution from the original "correct" values. > They are perfectly good for the purpose of making the graph on the > genome-browser. > > See also: http://genomewiki.ucsc.edu/index.php/Wiggle > noting the "Known Issues" section. > > --Hiram > > Alexander Donath wrote: >> Hi, >> >> I stumbled across an issue which was already mentioned in the mailing >> list a few >> years ago and seemed to be solved. >> I've downloaded phastCons values for the multiple alignments of the >> chromosomes >> of the 6 nematodes via the browser tool and the ftp server >> (http://hgdownload.cse.ucsc.edu/goldenPath/ce6/phastCons6way/). >> Somehow the >> values for the positions differ, e.g.: >> >> values from the table tool: >> >> track type=wiggle_0 name="Conservation" description="Multiz Alignment & >> Conservation (6 nematodes)" >> # output date: 2008-11-12 16:34:21 UTC >> # chrom specified: chrI >> # position specified: 1-10000000 >> # This data has been compressed with a minor loss in resolution. >> # (Worst case: 0.0078125) The original source data >> # (before querying and compression) is available at >> # http://hgdownload.cse.ucsc.edu/downloads.html >> variableStep chrom=chrI span=1 >> 1521 0.208543 >> 1522 0.339598 >> 1523 0.415472 >> 1524 0.601709 >> 1525 0.718969 >> 1526 0.787945 >> 1527 0.822433 >> 1528 0.829331 >> 1529 0.822433 >> 1530 0.787945 >> >> values from the chrI.data.gz file from the ftp directory: >> >> fixedStep chrom=chrI start=1521 step=1 >> 0.215 >> 0.345 >> 0.419 >> 0.604 >> 0.720 >> 0.793 >> 0.823 >> 0.833 >> 0.827 >> 0.789 >> >> >> How is that possible? And which values are correct? >> >> Best, >> Alex >> > -- web: www.bioinf.uni-leipzig.de phone: +49 341 97-16702 fax: +49 341 97-16679 skype: alex.donath -- By the time you've read this, you've already read it! _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
