Question: Looking for wig base coverage file for hg19
1
gravatar for Titus
7 months ago by
Titus440
Titus440 wrote:

Hi ,

I am trying to use EXCAVATOR to call CNV on my sample. To do that it's write in the documentation that i need this file http://grimmond.imb.uq.edu.au/uniqueome/downloads/hg19_uniqueome.coverage.base-space.25.1.Wig.gz . It's looks like unavailable do you know an other address where i could get it ? Or is there a way to generate it from hg19 fasta and a software ?

Best

software error • 411 views
ADD COMMENTlink modified 7 months ago by James Ashmore2.1k • written 7 months ago by Titus440
0
gravatar for James Ashmore
7 months ago by
James Ashmore2.1k
UK/Edinburgh/MRC Centre for Regenerative Medicine
James Ashmore2.1k wrote:

http://www.imagenix.com/uniqueome/downloads/

ADD COMMENTlink written 7 months ago by James Ashmore2.1k

This link doesn't work too.

ADD REPLYlink written 7 months ago by Titus440

Must be some local restriction in your case. It does lead to a page with files.

ADD REPLYlink modified 7 months ago • written 7 months ago by genomax37k

Ok i will try from home but when i click on the link i got : The requested URL /uniqueome/downloads/hg19_uniqueome.coverage.base-space.25.1.Wig.gz was not found on this server.

ADD REPLYlink written 7 months ago by Titus440

You are getting the right message. That file (though listed on the page @James linked to) does appear to be missing. In fact even though the page has many files listed only a couple at the very top seem to work.

ADD REPLYlink modified 7 months ago • written 7 months ago by genomax37k

Thanks , i hope this file will back ... I'm really confused i tried to use 2 CNV caller today , CoNIFER doesn't work i think because of some python 2.7 library not available (i think since python 3 ) and EXCAVATOR because of this file ....

ADD REPLYlink written 7 months ago by Titus440

Did you get the file? please share the link if you get it.

ADD REPLYlink written 10 weeks ago by pradyumna Sagar20

I didn't get it but i didn't try for a month ....

ADD REPLYlink written 10 weeks ago by Titus440

Hi Titus,

Have you got a chance to download the h19 wig file? or Do you know any links where I can download it?

ADD REPLYlink written 16 days ago by bioinforesearchquestions120

Excavator2_v1.1.2 provides ucsc.hg19.bw file, I think you can use ucsc's bigWigToWig utility to convert. I am not sure whether it is a good choice.

ADD REPLYlink written 14 days ago by pradyumna Sagar20
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