Good Afternoon Saba: If your example here is 0-relative bed type data, the most efficient wiggle representation would be:
variableStep chrom=chr1 span=50 224953598 1.96 224953698 3.06 224953798 2.92 224953898 2.38 224953998 2.71 224954098 3.34 224958091 2.16 These coordinates are 1-relative. This is assuming all of your data points are spanning 50 bases. Do not attempt to mix span size if your data is not all sized to 50 bases. Otherwise, you want to submit this data as bedGraph: http://genome.ucsc.edu/goldenPath/help/bedgraph.html and leave your coordinates as 0-relative bed format. Even more efficiently, you can convert your bedGraph data to bigWig: http://genome.ucsc.edu/goldenPath/help/bigWig.html which would require you to have the bedGraphToBigWig program available locally: http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/ --Hiram Saba Sajjadian wrote: > Hi, > > I want to load following data as a wiggle (type=wiggle_0) custom track > on the browser. I want to know if the coordinates should be based on > UCSC coordinates, 0-based start position, 1-based end position or not? > > chr1 224953597 224953647 1.96 > chr1 224953697 224953747 3.06 > chr1 224953797 224953847 2.92 > chr1 224953897 224953947 2.38 > chr1 224953997 224954047 2.71 > chr1 224954097 224954147 3.34 > chr1 224958090 224958140 2.16 > > Thanks > Saba Sajjadian > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
