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build hg38 in CEAS

Hi guys,

I tried to build hg38 in CEAS using command:

$ build_genomeBG -d hg38 -g refGene -w hg38.wig -o hg38.refGene

I made this hg38.wig and it looked like:

track type=wiggle_0
fixedStep chrom=chr1 start=1 step=248956422
1
fixedStep chrom=chr2 start=1 step=242193529
1
......

It seemed all good, and the annotation table was successfully created.

But when I run ceas:

$ ceas -g hg38.refGene -b Bio.bedgraph

A graph was generated, with no information about the genome (all showing bar value of 0), while the intervals in my bed seemed to be allocated into each category in a reasonable way.

What's going on?

chip-seq gene genome
• 3,706 views • link
updated by Ram Ram • written by chxu02 • chxu02

Hi,

I am experiencing the same problem for mm10. Did you find a solution for this?

Thanks

• 0 views • link
updated by Ram Ram • written by gfm.reg • gfm.reg

1 answer

You can simply add the flag --bg when you run ceas. Than it will properly show the reference genome data.

• 1 views • link
updated by Ram Ram • written by ctk2 • ctk2

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