Question: Looking for wig base coverage file for hg19
1
gravatar for Titus
13 months ago by
Titus610
Titus610 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 • 740 views
ADD COMMENTlink modified 13 months ago by James Ashmore2.4k • written 13 months ago by Titus610
0
gravatar for James Ashmore
13 months ago by
James Ashmore2.4k
UK/Edinburgh/MRC Centre for Regenerative Medicine
James Ashmore2.4k wrote:

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

ADD COMMENTlink written 13 months ago by James Ashmore2.4k

This link doesn't work too.

ADD REPLYlink written 13 months ago by Titus610

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

ADD REPLYlink modified 13 months ago • written 13 months ago by genomax49k

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 13 months ago by Titus610

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 13 months ago • written 13 months ago by genomax49k

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 13 months ago by Titus610

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

ADD REPLYlink written 9 months ago by pradyumna Sagar20

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

ADD REPLYlink written 9 months ago by Titus610

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 7 months ago by bioinforesearchquestions140

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 7 months ago by pradyumna Sagar20
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