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I am trying to find a single SNP on a bunch of dog genomes in a compressed vcf file (vcf.gz) and I have been using bcftools to do so. I posted before on what command I should use and got some help:
bcftools view -f PASS --threads 8 -T canine.bed -o 722g.990.SNP.INDEL.chrAll.vcf.gz -O 722g.990.SNP.INDEL.chrAll.vcf.bgz
I created an empty file for the output file but I get the error:
The output type "722g.990.SNP.INDEL.chrAll.vcf.bgz" not recognised
If anyone knows what's going on here and what I'm doing wrong, I would greatly appreciate it! Thank you
bcftools view -f PASS --threads 8 -T canine.bed -o 722g.990.SNP.INDEL.chrAll.vcf.gz -O 722g.990.SNP.INDEL.chrAll.vcf.bgz
I created an empty file for the output file but I get the error:
The output type "722g.990.SNP.INDEL.chrAll.vcf.bgz" not recognised
If anyone knows what's going on here and what I'm doing wrong, I would greatly appreciate it! Thank you
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