create vcf from bed coordinates
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2.6 years ago
gubrins ▴ 350

Heys,

I have a silly question for you, that I am not managing to accomplish. I have a vcf file and a bed file with some coordinate positions and I would like to get a second vcf file with only the SNPs found within the coordinates of my bed file. Any suggestions?

Thanks in advance!

bash • 574 views
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1
Entering edit mode
2.6 years ago
gubrins ▴ 350

Solved!

bcftools view -R regions.bed file.vcf.gz
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