[ol7_developer_EPEL] BEDTools-2.26.0-1.el7.x86_64

The BEDTools utilities allow one to address common genomics tasks such
as finding feature overlaps and computing coverage. The utilities are
largely based on four widely-used file formats: BED, GFF/GTF, VCF, and
SAM/BAM. Using BEDTools, one can develop sophisticated pipelines that
answer complicated research questions by "streaming" several BEDTools
together.

Filelist (Show Changelog) (Show related packages)

• /

  • usr

    • bin

      • annotateBed

      • bamToBed

      • bamToFastq

      • bed12ToBed6

      • bedToBam

      • bedToIgv

      • bedpeToBam

      • bedtools

      • closestBed

      • clusterBed

      • complementBed

      • coverageBed

      • expandCols

      • fastaFromBed

      • flankBed

      • genomeCoverageBed

      • getOverlap

      • groupBy

      • intersectBed

      • linksBed

      • mapBed

      • maskFastaFromBed

      • mergeBed

      • multiBamCov

      • multiIntersectBed

      • nucBed

      • pairToBed

      • pairToPair

      • randomBed

      • shiftBed

      • shuffleBed

      • slopBed

      • sortBed

      • subtractBed

      • tagBam

      • unionBedGraphs

      • windowBed

      • windowMaker

    • share

      • BEDTools

        • data

          • aluY.chr1.bed.gz

          • gerp.chr1.bed.gz

          • knownGene.hg18.chr21.bed

          • knownGene.hg18.chr21.short.bed

          • refseq.chr1.exons.bed.gz

          • simpleRepeats.chr1.bed.gz

        • genomes

          • human.hg18.genome

          • human.hg19.genome

          • human.hg38.genome

          • mouse.mm10.genome

          • mouse.mm8.genome

          • mouse.mm9.genome

      • doc

        • BEDTools-2.26.0

          • LICENSE

          • README.md

          • RELEASE_HISTORY

          • docs

            • Makefile

            • _build

              • doctrees

                • content

                  • advanced-usage.doctree

                  • bedtools-suite.doctree

                  • example-usage.doctree

                  • faq.doctree

                  • general-usage.doctree

                  • history.doctree

                  • installation.doctree

                  • overview.doctree

                  • quick-start.doctree

                  • related-tools.doctree

                  • tips-and-tricks.doctree

                  • tools

                    • annotate.doctree

                    • bamtobed.doctree

                    • bamtofastq.doctree

                    • bed12tobed6.doctree

                    • bedpetobam.doctree

                    • bedtobam.doctree

                    • closest.doctree

                    • cluster.doctree

                    • complement.doctree

                    • coverage.doctree

                    • expand.doctree

                    • fisher.doctree

                    • flank.doctree

                    • genomecov.doctree

                    • getfasta.doctree

                    • groupby.doctree

                    • igv.doctree

                    • intersect.doctree

                    • jaccard.doctree

                    • links.doctree

                    • makewindows.doctree

                    • map.doctree

                    • maskfasta.doctree

                    • merge.doctree

                    • multicov.doctree

                    • multiinter.doctree

                    • nuc.doctree

                    • overlap.doctree

                    • pairtobed.doctree

                    • pairtopair.doctree

                    • random.doctree

                    • reldist.doctree

                    • shift.doctree

                    • shuffle.doctree

                    • slop.doctree

                    • sort.doctree

                    • subtract.doctree

                    • tag.doctree

                    • unionbedg.doctree

                    • window.doctree

                • environment.pickle

                • index.doctree

              • html

                • .buildinfo

                • _images

                  • barski_binding_site.png

                  • bedtoolsMenu.png

                  • closest-glyph.png

                  • cluster-glyph.png

                  • complement-glyph.png

                  • flank-glyph.png

                  • galaxy-bedtools.png

                  • genomecov-glyph.png

                  • getfasta-glyph.png

                  • github-zip-button.png

                  • intersect-glyph.png

                  • jaccard-glyph.png

                  • map-glyph.png

                  • map-speed-comparo.png

                  • maskfasta-glyph.png

                  • memory-comparo.png

                  • merge-glyph.png

                  • random-glyph.png

                  • reldist-glyph.png

                  • reldist-plot.png

                  • res-genes.png

                  • shuffle-glyph.png

                  • slop-glyph.png

                  • speed-comparo.png

                  • subtract-glyph.png

                  • window-glyph.png

                • _sources

                  • content

                    • advanced-usage.txt

                    • bedtools-suite.txt

                    • example-usage.txt

                    • faq.txt

                    • general-usage.txt

                    • history.txt

                    • installation.txt

                    • overview.txt

                    • quick-start.txt

                    • related-tools.txt

                    • tips-and-tricks.txt

                    • tools

                      • annotate.txt

                      • bamtobed.txt

                      • bamtofastq.txt

                      • bed12tobed6.txt

                      • bedpetobam.txt

                      • bedtobam.txt

                      • closest.txt

                      • cluster.txt

                      • complement.txt

                      • coverage.txt

                      • expand.txt

                      • fisher.txt

                      • flank.txt

                      • genomecov.txt

                      • getfasta.txt

                      • groupby.txt

                      • igv.txt

                      • intersect.txt

                      • jaccard.txt

                      • links.txt

                      • makewindows.txt

                      • map.txt

                      • maskfasta.txt

                      • merge.txt

                      • multicov.txt

                      • multiinter.txt

                      • nuc.txt

                      • overlap.txt

                      • pairtobed.txt

                      • pairtopair.txt

                      • random.txt

                      • reldist.txt

                      • shift.txt

                      • shuffle.txt

                      • slop.txt

                      • sort.txt

                      • subtract.txt

                      • tag.txt

                      • unionbedg.txt

                      • window.txt

                  • index.txt

                • _static

                  • ajax-loader.gif

                  • basic.css

                  • bedtools.png

                  • bedtools.swiss.png

                  • comment-bright.png

                  • comment-close.png

                  • comment.png

                  • default.css

                  • doctools.js

                  • down-pressed.png

                  • down.png

                  • file.png

                  • jquery.js

                  • labibi.css

                  • labibi.js

                  • minus.png

                  • plus.png

                  • pygments.css

                  • rtd.css

                  • searchtools.js

                  • sidebar.js

                  • underscore.js

                  • up-pressed.png

                  • up.png

                  • websupport.js

                • content

                  • advanced-usage.html

                  • bedtools-suite.html

                  • example-usage.html

                  • faq.html

                  • general-usage.html

                  • history.html

                  • installation.html

                  • overview.html

                  • quick-start.html

                  • related-tools.html

                  • tips-and-tricks.html

                  • tools

                    • annotate.html

                    • bamtobed.html

                    • bamtofastq.html

                    • bed12tobed6.html

                    • bedpetobam.html

                    • bedtobam.html

                    • closest.html

                    • cluster.html

                    • complement.html

                    • coverage.html

                    • expand.html

                    • fisher.html

                    • flank.html

                    • genomecov.html

                    • getfasta.html

                    • groupby.html

                    • igv.html

                    • intersect.html

                    • jaccard.html

                    • links.html

                    • makewindows.html

                    • map.html

                    • maskfasta.html

                    • merge.html

                    • multicov.html

                    • multiinter.html

                    • nuc.html

                    • overlap.html

                    • pairtobed.html

                    • pairtopair.html

                    • random.html

                    • reldist.html

                    • shift.html

                    • shuffle.html

                    • slop.html

                    • sort.html

                    • subtract.html

                    • tag.html

                    • unionbedg.html

                    • window.html

                • genindex.html

                • index.html

                • objects.inv

                • search.html

                • searchindex.js

            • _static

              • labibi.css

              • labibi.js

            • bedtools.ai

            • bedtools.png

            • bedtools.swiss.png

            • build.sh

            • conf.py

            • content

              • advanced-usage.rst

              • bedtools-suite.rst

              • example-usage.rst

              • faq.rst

              • general-usage.rst

              • history.rst

              • images

                • bedtoolsMenu.png

                • fisher

                  • res-genes.png

                • galaxy-bedtools.png

                • github-zip-button.png

                • memory-comparo.png

                • speed-comparo.png

                • tool-glyphs

                  • barski_binding_site.png

                  • closest-glyph.png

                  • cluster-glyph.png

                  • complement-glyph.png

                  • flank-glyph.png

                  • genomecov-glyph.png

                  • getfasta-glyph.png

                  • intersect-glyph.png

                  • jaccard-glyph.ai

                  • jaccard-glyph.png

                  • map-glyph.png

                  • map-glyph.svg

                  • map-speed-comparo.png

                  • maskfasta-glyph.png

                  • maskfasta-glyph.svg

                  • merge-glyph.png

                  • random-glyph.ai

                  • random-glyph.png

                  • reldist-glyph.ai

                  • reldist-glyph.png

                  • reldist-plot.png

                  • shuffle-glyph.png

                  • slop-glyph.png

                  • subtract-glyph.png

                  • window-glyph.png

              • installation.rst

              • overview.rst

              • quick-start.rst

              • related-tools.rst

              • tips-and-tricks.rst

              • tools

                • annotate.rst

                • bamtobed.rst

                • bamtofastq.rst

                • bed12tobed6.rst

                • bedpetobam.rst

                • bedtobam.rst

                • closest.rst

                • cluster.rst

                • complement.rst

                • coverage.rst

                • expand.rst

                • fisher.rst

                • flank.rst

                • genomecov.rst

                • getfasta.rst

                • groupby.rst

                • igv.rst

                • intersect.rst

                • jaccard.rst

                • links.rst

                • makewindows.rst

                • map.rst

                • maskfasta.rst

                • merge.rst

                • multicov.rst

                • multiinter.rst

                • nuc.rst

                • overlap.rst

                • pairtobed.rst

                • pairtopair.rst

                • random.rst

                • reldist.rst

                • shift.rst

                • shuffle.rst

                • slop.rst

                • sort.rst

                • subtract.rst

                • tag.rst

                • unionbedg.rst

                • window.rst

            • index.rst

            • make.bat

            • templates

              • page.html

              • sidebar-intro.html

            • themes

              • rtd

                • static

                  • rtd.css_t

                • theme.conf