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bigwig file can see in igv but not in ucsc

I use bam2wig covert sam files into bigwig files, and peaks can be seen in igv but shown no data in ucsc. I'm wondering what happened? And my bigwig file size is about 700M.

rna-seq ucsc igv
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written by yuxinghai • yuxinghai

1 answer

did you use the same chromosome names ('chr' prefix) than in the UCSC browser ?

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written by Pierre Lindenbaum Pierre Lindenbaum

Thanks your answer, my bigwig file chromosome names only start with number, but i don't know how to make it work.

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written by yuxinghai • yuxinghai
  • convert you bigwig to wig using the UCSC tools bigWigToWig

  • use sed to change the chromosome names using sed . eg.:

    sed 's/chrom=/chrom=chr/'

  • move the resulting wiggle file to bigwig using wigToBigWig

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written by Pierre Lindenbaum Pierre Lindenbaum

Dose there any mothod don't have to covert bigwig to wig? can you help me?

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written by yuxinghai • yuxinghai

it works,Thank you for your help!

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written by yuxinghai • yuxinghai

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