78 citations
0 runs

linksBed

By Quinlan A., Last update 1494698999
All tools Run this tool

linksBed description

Creates an HTML file with links to an instance of the UCSC Genome Browser for all features or intervals in a BED file. This is useful for cases when one wants to manually inspect through a large set of annotations or features.


Parent program: BEDTools

bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome. 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.