Hello Mousheng, The "Duke DNase Sig" track in the hg17 database (dukeDnaseCd4Signal) was actually submitted to us as per-base scores. That is, the data is in fixed-step wiggle format, with 1-base steps. A description of the wiggle data format is here: http://genome.ucsc.edu/goldenPath/help/wiggle.html
If you like, we can make the dukeDnaseCd4Signal wiggle file available to you. However, it will still be in a one-score-per-base format. You might be interested in using the "Duke DNase Sites" track instead of the "Duke DNase Sig" track. If not, and if you would still like the signal data in wiggle format, please let us know. -- Brooke Rhead UCSC Genome Bioinformatics Group On 11/05/08 10:30, mousheng xu wrote: > Dear UCSC genome help, > > I am trying to get data in "dukeDnaseCd4Signal", but the data are organized > in a very inefficient way -- signal is recorded for every base instead of > subsequence. For instance, suppose chr1:100-200 has the same signal level > -0.54, instead of giving chr1 100 200 -0.54 as one entry, > "dukeDnaseCd4Signal" gives 101 entries from position 100 to 200 with the > same value -0.54 like below > 100 -0.54 > 101 -0.54 > ... > 200 -0.54 > > The problem is that it unnecessarily takes enormous amount of space. > > Thanks a lot in advance! > > Sincerely, > > Mousheng Xu > > Research Fellow > Brigham & Women's Hospital > Harvard Medical School > 617-525-0739 > _______________________________________________ > Genome maillist - [email protected] > http://www.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
