Question: CircosVCF test dataset?
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gravatar for kadamek49
7 days ago by
kadamek490
kadamek490 wrote:

Hello,

I would like to use CircosVCF to look at the genome and SNP density for a couple of my vcf files. However, when I submit it to be processed it gives me an error of "Upload faild. This may happen if the chromosomes included in the karyotype have no SNP data in the VCF files."

I am unsure of why my vcf files won't upload as I know there is plenty of SNP data in the VCF files. Does anyone have an example test dataset that I could use? I would like to compare it to my vcf files to see where the differences are.

Any help would be greatly appreciated!

Also, does anyone have any recommendations for other programs or methods to display SNP density and the genome in a visually appealing way from vcf files?

ADD COMMENTlink written 7 days ago by kadamek490

Also, does anyone have any recommendations for other programs or methods to display SNP density and the genome in a visually appealing way from vcf files?

circos, the command line. http://circos.ca/

ADD REPLYlink written 7 days ago by Pierre Lindenbaum130k
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