bed to vcf format conversion
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4.9 years ago

Hi Guys,new to biostarts and new to bioinformatics. I am trying to convert my output obtained from liftover of hg38 to hg19 which is in .bed format to .vcf format. I am finding no help on google.

.bed ---> .vcf

Thanks in advance.

.bed .vcf format conversion • 10k views
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4.9 years ago
Denise CS ★ 5.1k

Input the BED file into the Variant Effect Predictor, and get the output as VCF.

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8 weeks ago
binodregmi30 ▴ 10

use plink version 1.9 or above and run the following command: plink --bfile my_file_prefix --recode vcf --out my_output_file_prefix

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