bigwig file can see in igv but not in ucsc

Question

[yuxinghai]

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.

Answer 1

[Pierre Lindenbaum]

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

[yuxinghai]

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

[Pierre Lindenbaum]

• 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

[yuxinghai]

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

[Pierre Lindenbaum]

you could convert the name in the original bam : Bam File: Change Chromosome Notation

[yuxinghai]

it works,Thank you for your help!