Question: bigwig file in UCSC custom track
0
gravatar for Ati
3.6 years ago by
Ati30
Ati30 wrote:

Hi

I had a wiggle file in mm9 format. I converted it to bedgraph and using UCSC liftovered it to mm10. Then sort it and convert it to bigwig and put it in UCSC custom track. But something was changed. In wiggle format I could see the coverage by height but know all points within genome have same hight. How I could change it?

Thanks in advance

sequencing rna-seq bigwig ucsc • 1.4k views
ADD COMMENTlink modified 3.6 years ago by Sukhdeep Singh9.9k • written 3.6 years ago by Ati30
1
gravatar for Sukhdeep Singh
3.6 years ago by
Sukhdeep Singh9.9k
Netherlands
Sukhdeep Singh9.9k wrote:

I think you loose this information while using liftOver. It would work fine with a bed file for example and then you can create a bedGraph and later wig or bigwig out of it.

You can try CrossMap so see if you retain it.

ADD COMMENTlink written 3.6 years ago by Sukhdeep Singh9.9k

Thanks a lot. It works

ADD REPLYlink written 3.6 years ago by Ati30

Great, you can mark the answer accepted then (Tick in the round box)

ADD REPLYlink written 3.6 years ago by Sukhdeep Singh9.9k
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