Vcftools Get-Info Output Name FORMAT
Hi all,
I am using the vcftools to extract data using a filter to exclude a list of snps: "list.txt".
e.g.
vcftools --vcf A.vcf --exclude-positions list.txt --out /home/new_vcfs/A-new
The file it creates is always called A-new.recode.vcf
Does anybody knows if there is any way of controlling the name of the output file to something like: A-new.vcf? I do not want a point and the word recode (.recode) in the name of my output file name. After doing this I will merge the vcf files (more than 20).
I really appreciate your help
Regards,
Meddly
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med_robles •
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med_robles •
1 answer
Hi Meddly,
How about writing to stdout and then redirecting to the filename of your choice?
vcftools --vcf A.vcf --exclude-positions list.txt --stdout > /home/new_vcfs/A-new.vcf
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brian@codenhance.com
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brian@codenhance.com
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