Hi everyone,
I am very new to the field of NGS and bioinformatics. I have obtained the VCF file for the mouse strains that Sanger Institute has sequenced. What i want to do now is to annotate the variants from a specific chromosome and make a significant list or hopefully be able to put them in some sort of graphical display to be able to analyze these variants. I have been playing around with VCFTOOLS but it only permits VCF4 or VCF4.1 files (as opposed to the 3.3 i have). I think i can use commands to already isolate the chromosome i need to work on, but still lost on how to actually "read" this VCF and get the info out of it.
Thanks a lot for your help,
Juan
I am very new to the field of NGS and bioinformatics. I have obtained the VCF file for the mouse strains that Sanger Institute has sequenced. What i want to do now is to annotate the variants from a specific chromosome and make a significant list or hopefully be able to put them in some sort of graphical display to be able to analyze these variants. I have been playing around with VCFTOOLS but it only permits VCF4 or VCF4.1 files (as opposed to the 3.3 i have). I think i can use commands to already isolate the chromosome i need to work on, but still lost on how to actually "read" this VCF and get the info out of it.
Thanks a lot for your help,
Juan
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