Introduction

bedtools is a powerful set of utilities for genomics analysis tasks. For example, bedtools allows one to intersect, merge, count, complement, and shuffle genomic intervals from multiple files in widely-used genomic file formats such as BAM, BED, GFF/GTF, VCF. While each individual tool is designed to do a relatively simple task (e.g., intersect two interval files), quite sophisticated analyses can be conducted by combining multiple bedtools operations on the Unix command line.

For more information, visit the official bedtools website .

Programming language: C/C++

Brief description: a powerful set of utilities for genomics analysis tasks

Open source license: GNU