Hi, I loaded one of our tracks (wig) onto UCSC genome browser. The error msg is
*File 'PolII_eland_sorted_pos4.wig.gz' - track load error (track name='ct_PolIIIndex4_7269'): wibSizeLimit of 300000000 has been exceeded; you must use bedGraph's for files with more data points *the file size is 18.2M, compressed gz is 5.8 MB, wc shows only 1691995 lines. We loaded a wig gz file of 13.5 MB to UCSC browser without any problem. I found the following info https://lists.soe.ucsc.edu/pipermail/genome/2009-October/020211.html I can change wig to bigWig, then load to UCSC website. I have some questions about wig size limit. 1. the size limit refers to file original size, or compressed size, or lines of file, or something else... 2. If I install genome browser locally, there will not size limit for wig file size, right? 3. since my variableStep wig data is not quite dense overall, which format is my best choice to load to genome browser, wig, bedGraph, bigWig, or bigBed..? I am not a fan of binary files. http://genomewiki.ucsc.edu/index.php/Selecting_a_graphing_track_data_format *Caution for sparse variableStep data* The wiggle format was designed for quickly displaying data that is quite dense. The variableStep format, in particular, becomes very inefficient when there are only a few data points per 1,024 bases. If variableStep data points (*i.e.*, chromStarts) are greater than about 100 bases apart, it is advisable to use BedGraph<http://genome.ucsc.edu/goldenPath/help/bedgraph.html>format. Thanks, Tiandao _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
