Interpreting "Intersectbed" Output. Hello,I have been trying to interpret the output produced by the "intersect. Bed" tool from the BEDTools suite. I could not find any documentation related to interpreting the output. I used the basic command for intersect.
Search. Projects; Search; About; Project; Source; Issues; Wikis; Downloads. I am trying to install Bedtools in a user directory, however I looked at the manual for its makefile, and there is no such argument like '--prefix' for me to change. Is there a way to install all Bedtools in a directory that I. BEDTools Summary; Brief example; Table of supported utilities. intersectBed -a stdin -b exons.bed > snpsInExons.bed. Please read the BEDTools manual as well as the Usage and Advanced Usage pages.
Bedie. intersect. Bed - a file. 1. bed - b file. Here are some lines for the output : chr. While the first 3 columns describe the chromosome number, the start and the stop co- ordinates, I am unable to figure out what the rest of the numbers mean. Any help on this would be much appreciated : )Thank you.
Some examples taken from the excellent BEDTools manual. ~/bed$ intersectBed -a utrs.bed -b snps.bed -c chr 39 59 exon11 1 chr 150 190 exon13 1 chr 359 379 exon21 1 chr 460 510 exon23 0 ~/bed$ intersectBed -a.
Question: Interpreting 'Intersectbed' Output. 0. 4.0 years ago by. Atom Smasher • 0. You can download the BEDTOOLs manual from this link. I hope this helps. ADD COMMENT • link written 4.0 years ago by Gjain ♦ 4.6k. Bedtools: a powerful toolset for genome arithmetic¶ Collectively, the 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.