How To Display Bed12 Format In Ucsc Browser

Question

[camelbbs]

HI, I have a question about displaying the bed12 format in UCSC browser. I tried to convert it to bed but it doesn't work in the browser. Does anyone know how to construct a custom track for this format. I got the bed12 format from my RNAseq junction reads:

    track name=junctions description="TopHat junctions"
    chr1    14756    15038    JUNC00000001    294    -    14756    15038    255,0,0    2    73,69    0,213
    chr1    14969    15836    JUNC00000002    144    -    14969    15836    255,0,0    2    69,41    0,826
    chr1    15905    16677    JUNC00000003    12    -    15905    16677    255,0,0    2    42,71    0,701

Thanks!

Answer 1

[Ido Tamir]

The UCSC browser can display bed12 format without problems. https://genome.ucsc.edu/FAQ/FAQformat.html#format1

If there is a problem with your specific file, there will be an error messages shown indicating the first problem the browser encountered.