Created attachment 163109 [details]
shar(1) of biology/bedtools; Makefile, distinfo, pkg-plist, pkg-descr, and a small patch in files/
Bedtools performs common set arithmetic tasks on genomes. Each subtool performs a relatively simple task---intersection, complementation, etc.---on the input genome(s), and arbitrarily complex manipulations and analyses are possible through the creation of shell scripts that string these operations together.
A commit references this bug:
Date: Tue Jan 19 08:56:35 UTC 2016
New revision: 406676
The bedtools utilities are a suite of tools for performing a wide range of
genomics analysis tasks. The most widely-used of these tools enable genome
arithmetic, i.e., set theory on the genome. For example, with bedtools one
can intersect, merge, count, complement, and shuffle genomic intervals from
multiple files in common genomic formats such as BAM, BED, GFF/GTF, and VCF.
Although each individual utility is designed to do a relatively simple task,
e.g., intersect two interval files, more sophisticated analyses can be
conducted by stringing together multiple bedtools operations on the command
line or in shell scripts.
Submitted by: firstname.lastname@example.org