VCF files and Bed tools

Question

[Rna-Seq]

Hi,

Bedtools can take bed/VCF and other file format as input. I wonder if i can use bed tools to intersect for instance bed file and VCF file. As you know, VCF file is 1bp based file while bed is 0 bp start and 1bp end file.

So, Is it possible to used bed tools for arithmetic between VAF and bed files,OR the input files must have the same format, all input files are either bed or VCF files.

Thank you in advance

Answer 1

[Sean Davis]

Bedtools will treat those different formats correctly.