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Bioconductor - BSgenome
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</p> </div> <!-- If there are no announcements, comment out the element --> <div class="header-size"> <div class="header-logo"> <a href="/"> <img src="/images/logo/svg/Logo.svg" class="masthead-logo" alt="Bioconductor home" /> </a> </div> <nav class="header-nav"> <div class="nav-links"> <a class="format-bold mobile-link" href="/about/">About</a> <a class="format-bold mobile-link" href="/help/">Learn</a> <a class="format-bold mobile-link" href="/packages/release/BiocViews.html#___Software">Packages</a> <a class="format-bold mobile-link" href="/developers/">Developers</a> </div> <div class="search-container"> <form class="site-search" id="search-form" method="GET" action="/help/search/index.html" > <label for="search-bar" class="sr-only">Search</label> <img src="/images/icons/search-icon.svg" class="search-icon" alt="Search icon" aria-hidden="true" /> <input class="search-bar" name="search-bar" placeholder="Search" id="search-bar" /> </form> </div> <a class="header-button format-bold mobile-link" href="/install/"> <span class="get-started format-bold"> Get Started <svg xmlns="http://www.w3.org/2000/svg" width="14" height="15" viewBox="0 0 14 15" fill="none" > <path d="M5.25 3.66665L9.33333 7.74998L5.25 11.8333" stroke="#3792AD" stroke-width="2.2" stroke-linecap="round" stroke-linejoin="round" /> </svg> </span> </a> </nav> <div class="nav-mobile"> <h6>Menu</h6> <div class="hamburger"> <span class="bar"></span> <span class="bar"></span> <span class="bar"></span> </div> </div> </div> </header> <main> <div class="container"> <section class="content"> <ul class="breadcrumbs"> <li><a href="/">Home</a></li> <li><a href="/packages/3.20/BiocViews.html">Bioconductor 3.20</a></li> <li><a href="/packages/3.20/bioc">Software Packages</a></li> <li>BSgenome</li> </ul> <h1>BSgenome</h1> <div> <p>This is the <b>released</b> version of BSgenome; for the devel version, see <a href="/packages/devel/bioc/html/BSgenome.html">BSgenome</a>.</p> <h2>Software infrastructure for efficient representation of full genomes and their SNPs</h2> <div class="sidebar-box" id="badges-box"> <section class="badges"> <a href="#archives"> <img src="/shields/availability/release/BSgenome.svg" alt="Platform availability badge" title="Whether the package is available on all platforms; click for details." /> </a> <a href="http://bioconductor.org/packages/stats/bioc/BSgenome/"> <img src="/shields/downloads/release/BSgenome.svg" alt="Ranking badge" title="Ranking by number of downloads. A lower number means the package is downloaded more frequently. Determined within a package type (software, experiment, annotation, workflow) and uses the number of distinct IPs for the last 12 months." /> </a> <a href="https://support.bioconductor.org/tag/bsgenome"> <img src="/shields/posts/BSgenome.svg" alt="Support activity badge" title="Support site activity, last 6 months: answered posts / total posts." /> </a> <a href="#since"> <img src="/shields/years-in-bioc/BSgenome.svg" alt="Years in BioConductor badge" title="How long since the package was first in a released Bioconductor version (or is it in devel only)." /> </a> <a href="https://bioconductor.org/checkResults/release/bioc-LATEST/BSgenome/"> <img src="/shields/build/release/bioc/BSgenome.svg" alt="Build results badge" title="build results; click for full report" /> </a> <a href="https://bioconductor.org/checkResults/release/bioc-LATEST/BSgenome/"> <img src="/shields/lastcommit/release/bioc/BSgenome.svg" alt="Last commit badge" title="time since last commit. possible values: today, < 1 week, < 1 month, < 3 months, since release, before release" /> </a> <a href="#since"> <img src="/shields/dependencies/release/BSgenome.svg" alt="Dependency count badge" title="Number of recursive dependencies needed to install package." /> </a> </section> <p> DOI: <a title="DOI for use in publications, etc., will always redirect to current release version (or devel if package is not in release yet)." href="https://doi.org/doi:10.18129/B9.bioc.BSgenome" > 10.18129/B9.bioc.BSgenome </a> </p> </div> <p><br></p> <div class="package-info"> <p> <strong>Bioconductor version:</strong> Release (3.20) </p> <p> Infrastructure shared by all the Biostrings-based genome data packages. </p> <p> <strong>Author:</strong> Herv茅 Pag猫s [aut, cre] <p /> <p> <strong>Maintainer:</strong> Herv茅 Pag猫s <hpages.on.github at gmail.com> </p> <div id="bioc-citation-outer"> <strong>Citation (from within R, enter <code>citation("BSgenome")</code>):</strong> <div id="bioc-citation" class="bioc-citation"></div> </div> </div> <h3>Installation</h3> <p> To install this package, start R (version "4.4") and enter: </p> <pre><code> if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("BSgenome") </code></pre> <p> For older versions of R, please refer to the appropriate <a href="/about/release-announcements/">Bioconductor release</a>. </p> <h3>Documentation</h3> <p>To view documentation for the version of this package installed in your system, start R and enter:</p> <pre><code>browseVignettes("BSgenome")</code></pre> <table> <tr> <td>Efficient genome searching with Biostrings and the BSgenome data packages</td> <td> <a onClick="javascript: pageTracker._trackPageview('../vignettes/BSgenome/inst/doc/GenomeSearching.pdf'); " href="../vignettes/BSgenome/inst/doc/GenomeSearching.pdf">PDF</a> </td> <td> <a onClick="javascript: pageTracker._trackPageview('../vignettes/BSgenome/inst/doc/GenomeSearching.R'); " href="../vignettes/BSgenome/inst/doc/GenomeSearching.R">R Script</a> </td> </tr> <tr> <td>How to forge a BSgenome data package</td> <td> <a onClick="javascript: pageTracker._trackPageview('../vignettes/BSgenome/inst/doc/BSgenomeForge.pdf'); " href="../vignettes/BSgenome/inst/doc/BSgenomeForge.pdf">PDF</a> </td> </tr> <tr> <td>Reference Manual</td> <td> <a onClick="javascript: pageTracker._trackPageview('../manuals/BSgenome/man/BSgenome.pdf'); " href="../manuals/BSgenome/man/BSgenome.pdf">PDF</a> </td> </tr> <tr> <td>NEWS</td> <td> <a href="../news/BSgenome/NEWS">Text</a> </td> </tr> </table> <p> <div class="info-section-button-padding"> <a class="brand-border-button" href="https://support.bioconductor.org/tag/bsgenome"> <span class="span-brand format-bold"> Need some help? Ask on the Bioconductor Support site! <svg xmlns="http://www.w3.org/2000/svg" width="14" height="15" viewBox="0 0 14 15" fill="none" > <path d="M5.25 3.66665L9.33333 7.74998L5.25 11.8333" stroke="#3792AD" stroke-width="2.2" stroke-linecap="round" stroke-linejoin="round" /> </svg> </span> </a> </div> </p> <h3 id="details">Details</h3> <table class="full-width"> <tr> <td>biocViews</td> <td><a href="../../BiocViews.html#___Annotation">Annotation</a>, <a href="../../BiocViews.html#___DataRepresentation">DataRepresentation</a>, <a href="../../BiocViews.html#___Genetics">Genetics</a>, <a href="../../BiocViews.html#___Infrastructure">Infrastructure</a>, <a href="../../BiocViews.html#___SNP">SNP</a>, <a href="../../BiocViews.html#___SequenceMatching">SequenceMatching</a>, <a href="../../BiocViews.html#___Software">Software</a></td> </tr> <tr> <td>Version</td> <td>1.74.0</td> </tr> <tr id="since"> <td>In Bioconductor since</td> <td>BioC 1.9 (R-2.4) (18.5 years)</td> </tr> <tr> <td>License</td> <td>Artistic-2.0</td> </tr> <tr> <td>Depends</td> <td>R (>= 2.8.0), methods, <a href="../../bioc/html/BiocGenerics.html">BiocGenerics</a>(>= 0.13.8), <a href="../../bioc/html/S4Vectors.html">S4Vectors</a>(>= 0.17.28), <a href="../../bioc/html/IRanges.html">IRanges</a>(>= 2.13.16), <a href="../../bioc/html/GenomeInfoDb.html">GenomeInfoDb</a>(>= 1.25.6), <a href="../../bioc/html/GenomicRanges.html">GenomicRanges</a>(>= 1.31.10), <a href="../../bioc/html/Biostrings.html">Biostrings</a>(>= 2.47.6), <a href="../../bioc/html/BiocIO.html">BiocIO</a>, <a href="../../bioc/html/rtracklayer.html">rtracklayer</a></td> </tr> <tr> <td>Imports</td> <td>utils, stats, <a class="cran_package" href="http://cran.rstudio.com/web/packages/matrixStats/index.html">matrixStats</a>, <a href="../../bioc/html/XVector.html">XVector</a>, <a href="../../bioc/html/Rsamtools.html">Rsamtools</a></td> </tr> <tr> <td>System Requirements</td> <td></td> </tr> <tr> <td>URL</td> <td><a href="https://bioconductor.org/packages/BSgenome">https://bioconductor.org/packages/BSgenome</a> </td> </tr> <tr> <td>Bug Reports</td> <td><a href="https://github.com/Bioconductor/BSgenome/issues">https://github.com/Bioconductor/BSgenome/issues</a> </td> </tr> </table> <details> <summary class="package-details">See More</summary> <table class="full-width"> <tr> <td>Suggests</td> <td><a class="cran_package" href="http://cran.rstudio.com/web/packages/BiocManager/index.html">BiocManager</a>, <a href="../../data/annotation/html/BSgenome.Celegans.UCSC.ce2.html">BSgenome.Celegans.UCSC.ce2</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg38.html">BSgenome.Hsapiens.UCSC.hg38</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg38.masked.html">BSgenome.Hsapiens.UCSC.hg38.masked</a>, <a href="../../data/annotation/html/BSgenome.Mmusculus.UCSC.mm10.html">BSgenome.Mmusculus.UCSC.mm10</a>, <a href="../../data/annotation/html/BSgenome.Rnorvegicus.UCSC.rn5.html">BSgenome.Rnorvegicus.UCSC.rn5</a>, <a href="../../data/annotation/html/BSgenome.Scerevisiae.UCSC.sacCer1.html">BSgenome.Scerevisiae.UCSC.sacCer1</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.NCBI.GRCh38.html">BSgenome.Hsapiens.NCBI.GRCh38</a>, <a href="../../data/annotation/html/TxDb.Hsapiens.UCSC.hg38.knownGene.html">TxDb.Hsapiens.UCSC.hg38.knownGene</a>, <a href="../../data/annotation/html/TxDb.Mmusculus.UCSC.mm10.knownGene.html">TxDb.Mmusculus.UCSC.mm10.knownGene</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP144.GRCh38.html">SNPlocs.Hsapiens.dbSNP144.GRCh38</a>, <a href="../../data/annotation/html/XtraSNPlocs.Hsapiens.dbSNP144.GRCh38.html">XtraSNPlocs.Hsapiens.dbSNP144.GRCh38</a>, <a href="../../data/annotation/html/hgu95av2probe.html">hgu95av2probe</a>, <a class="cran_package" href="http://cran.rstudio.com/web/packages/RUnit/index.html">RUnit</a>, <a href="../../bioc/html/BSgenomeForge.html">BSgenomeForge</a></td> </tr> <tr> <td>Linking To</td> <td></td> </tr> <tr> <td>Enhances</td> <td></td> </tr> <tr> <td>Depends On Me</td> <td><a href="../../bioc/html/bambu.html">bambu</a>, <a href="../../bioc/html/BSgenomeForge.html">BSgenomeForge</a>, <a href="../../bioc/html/ChIPanalyser.html">ChIPanalyser</a>, <a href="../../bioc/html/GOTHiC.html">GOTHiC</a>, <a href="../../bioc/html/HelloRanges.html">HelloRanges</a>, <a href="../../bioc/html/MEDIPS.html">MEDIPS</a>, <a href="../../bioc/html/periodicDNA.html">periodicDNA</a>, <a href="../../bioc/html/REDseq.html">REDseq</a>, <a href="../../bioc/html/rGADEM.html">rGADEM</a>, <a href="../../bioc/html/VarCon.html">VarCon</a>, <a href="../../data/annotation/html/BSgenome.Alyrata.JGI.v1.html">BSgenome.Alyrata.JGI.v1</a>, <a href="../../data/annotation/html/BSgenome.Amellifera.BeeBase.assembly4.html">BSgenome.Amellifera.BeeBase.assembly4</a>, <a href="../../data/annotation/html/BSgenome.Amellifera.NCBI.AmelHAv3.1.html">BSgenome.Amellifera.NCBI.AmelHAv3.1</a>, <a href="../../data/annotation/html/BSgenome.Amellifera.UCSC.apiMel2.html">BSgenome.Amellifera.UCSC.apiMel2</a>, <a href="../../data/annotation/html/BSgenome.Amellifera.UCSC.apiMel2.masked.html">BSgenome.Amellifera.UCSC.apiMel2.masked</a>, <a href="../../data/annotation/html/BSgenome.Aofficinalis.NCBI.V1.html">BSgenome.Aofficinalis.NCBI.V1</a>, <a href="../../data/annotation/html/BSgenome.Athaliana.TAIR.04232008.html">BSgenome.Athaliana.TAIR.04232008</a>, <a href="../../data/annotation/html/BSgenome.Athaliana.TAIR.TAIR9.html">BSgenome.Athaliana.TAIR.TAIR9</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau3.html">BSgenome.Btaurus.UCSC.bosTau3</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau3.masked.html">BSgenome.Btaurus.UCSC.bosTau3.masked</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau4.html">BSgenome.Btaurus.UCSC.bosTau4</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau4.masked.html">BSgenome.Btaurus.UCSC.bosTau4.masked</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau6.html">BSgenome.Btaurus.UCSC.bosTau6</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau6.masked.html">BSgenome.Btaurus.UCSC.bosTau6.masked</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau8.html">BSgenome.Btaurus.UCSC.bosTau8</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau9.html">BSgenome.Btaurus.UCSC.bosTau9</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau9.masked.html">BSgenome.Btaurus.UCSC.bosTau9.masked</a>, <a href="../../data/annotation/html/BSgenome.Carietinum.NCBI.v1.html">BSgenome.Carietinum.NCBI.v1</a>, <a href="../../data/annotation/html/BSgenome.Celegans.UCSC.ce10.html">BSgenome.Celegans.UCSC.ce10</a>, <a href="../../data/annotation/html/BSgenome.Celegans.UCSC.ce11.html">BSgenome.Celegans.UCSC.ce11</a>, <a href="../../data/annotation/html/BSgenome.Celegans.UCSC.ce2.html">BSgenome.Celegans.UCSC.ce2</a>, <a href="../../data/annotation/html/BSgenome.Celegans.UCSC.ce6.html">BSgenome.Celegans.UCSC.ce6</a>, <a href="../../data/annotation/html/BSgenome.Cfamiliaris.UCSC.canFam2.html">BSgenome.Cfamiliaris.UCSC.canFam2</a>, <a href="../../data/annotation/html/BSgenome.Cfamiliaris.UCSC.canFam2.masked.html">BSgenome.Cfamiliaris.UCSC.canFam2.masked</a>, <a href="../../data/annotation/html/BSgenome.Cfamiliaris.UCSC.canFam3.html">BSgenome.Cfamiliaris.UCSC.canFam3</a>, <a href="../../data/annotation/html/BSgenome.Cfamiliaris.UCSC.canFam3.masked.html">BSgenome.Cfamiliaris.UCSC.canFam3.masked</a>, <a href="../../data/annotation/html/BSgenome.Cjacchus.UCSC.calJac3.html">BSgenome.Cjacchus.UCSC.calJac3</a>, <a href="../../data/annotation/html/BSgenome.Cjacchus.UCSC.calJac4.html">BSgenome.Cjacchus.UCSC.calJac4</a>, <a href="../../data/annotation/html/BSgenome.CneoformansVarGrubiiKN99.NCBI.ASM221672v1.html">BSgenome.CneoformansVarGrubiiKN99.NCBI.ASM221672v1</a>, <a href="../../data/annotation/html/BSgenome.Creinhardtii.JGI.v5.6.html">BSgenome.Creinhardtii.JGI.v5.6</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm2.html">BSgenome.Dmelanogaster.UCSC.dm2</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm2.masked.html">BSgenome.Dmelanogaster.UCSC.dm2.masked</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm3.html">BSgenome.Dmelanogaster.UCSC.dm3</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm3.masked.html">BSgenome.Dmelanogaster.UCSC.dm3.masked</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm6.html">BSgenome.Dmelanogaster.UCSC.dm6</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer10.html">BSgenome.Drerio.UCSC.danRer10</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer11.html">BSgenome.Drerio.UCSC.danRer11</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer5.html">BSgenome.Drerio.UCSC.danRer5</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer5.masked.html">BSgenome.Drerio.UCSC.danRer5.masked</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer6.html">BSgenome.Drerio.UCSC.danRer6</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer6.masked.html">BSgenome.Drerio.UCSC.danRer6.masked</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer7.html">BSgenome.Drerio.UCSC.danRer7</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer7.masked.html">BSgenome.Drerio.UCSC.danRer7.masked</a>, <a href="../../data/annotation/html/BSgenome.Dvirilis.Ensembl.dvircaf1.html">BSgenome.Dvirilis.Ensembl.dvircaf1</a>, <a href="../../data/annotation/html/BSgenome.Ecoli.NCBI.20080805.html">BSgenome.Ecoli.NCBI.20080805</a>, <a href="../../data/annotation/html/BSgenome.Gaculeatus.UCSC.gasAcu1.html">BSgenome.Gaculeatus.UCSC.gasAcu1</a>, <a href="../../data/annotation/html/BSgenome.Gaculeatus.UCSC.gasAcu1.masked.html">BSgenome.Gaculeatus.UCSC.gasAcu1.masked</a>, <a href="../../data/annotation/html/BSgenome.Ggallus.UCSC.galGal3.html">BSgenome.Ggallus.UCSC.galGal3</a>, <a href="../../data/annotation/html/BSgenome.Ggallus.UCSC.galGal3.masked.html">BSgenome.Ggallus.UCSC.galGal3.masked</a>, <a href="../../data/annotation/html/BSgenome.Ggallus.UCSC.galGal4.html">BSgenome.Ggallus.UCSC.galGal4</a>, <a href="../../data/annotation/html/BSgenome.Ggallus.UCSC.galGal4.masked.html">BSgenome.Ggallus.UCSC.galGal4.masked</a>, <a href="../../data/annotation/html/BSgenome.Ggallus.UCSC.galGal5.html">BSgenome.Ggallus.UCSC.galGal5</a>, <a href="../../data/annotation/html/BSgenome.Ggallus.UCSC.galGal6.html">BSgenome.Ggallus.UCSC.galGal6</a>, <a href="../../data/annotation/html/BSgenome.Gmax.NCBI.Gmv40.html">BSgenome.Gmax.NCBI.Gmv40</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.1000genomes.hs37d5.html">BSgenome.Hsapiens.1000genomes.hs37d5</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.NCBI.GRCh38.html">BSgenome.Hsapiens.NCBI.GRCh38</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.NCBI.T2T.CHM13v2.0.html">BSgenome.Hsapiens.NCBI.T2T.CHM13v2.0</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg17.html">BSgenome.Hsapiens.UCSC.hg17</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg17.masked.html">BSgenome.Hsapiens.UCSC.hg17.masked</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg18.html">BSgenome.Hsapiens.UCSC.hg18</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg18.masked.html">BSgenome.Hsapiens.UCSC.hg18.masked</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg19.html">BSgenome.Hsapiens.UCSC.hg19</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg19.masked.html">BSgenome.Hsapiens.UCSC.hg19.masked</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg38.html">BSgenome.Hsapiens.UCSC.hg38</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg38.dbSNP151.major.html">BSgenome.Hsapiens.UCSC.hg38.dbSNP151.major</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg38.dbSNP151.minor.html">BSgenome.Hsapiens.UCSC.hg38.dbSNP151.minor</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hg38.masked.html">BSgenome.Hsapiens.UCSC.hg38.masked</a>, <a href="../../data/annotation/html/BSgenome.Hsapiens.UCSC.hs1.html">BSgenome.Hsapiens.UCSC.hs1</a>, <a href="../../data/annotation/html/BSgenome.Mdomestica.UCSC.monDom5.html">BSgenome.Mdomestica.UCSC.monDom5</a>, <a href="../../data/annotation/html/BSgenome.Mfascicularis.NCBI.5.0.html">BSgenome.Mfascicularis.NCBI.5.0</a>, <a href="../../data/annotation/html/BSgenome.Mfascicularis.NCBI.6.0.html">BSgenome.Mfascicularis.NCBI.6.0</a>, <a href="../../data/annotation/html/BSgenome.Mfuro.UCSC.musFur1.html">BSgenome.Mfuro.UCSC.musFur1</a>, <a href="../../data/annotation/html/BSgenome.Mmulatta.UCSC.rheMac10.html">BSgenome.Mmulatta.UCSC.rheMac10</a>, <a href="../../data/annotation/html/BSgenome.Mmulatta.UCSC.rheMac2.html">BSgenome.Mmulatta.UCSC.rheMac2</a>, <a href="../../data/annotation/html/BSgenome.Mmulatta.UCSC.rheMac2.masked.html">BSgenome.Mmulatta.UCSC.rheMac2.masked</a>, <a href="../../data/annotation/html/BSgenome.Mmulatta.UCSC.rheMac3.html">BSgenome.Mmulatta.UCSC.rheMac3</a>, <a href="../../data/annotation/html/BSgenome.Mmulatta.UCSC.rheMac3.masked.html">BSgenome.Mmulatta.UCSC.rheMac3.masked</a>, <a href="../../data/annotation/html/BSgenome.Mmulatta.UCSC.rheMac8.html">BSgenome.Mmulatta.UCSC.rheMac8</a>, <a href="../../data/annotation/html/BSgenome.Mmusculus.UCSC.mm10.html">BSgenome.Mmusculus.UCSC.mm10</a>, <a href="../../data/annotation/html/BSgenome.Mmusculus.UCSC.mm10.masked.html">BSgenome.Mmusculus.UCSC.mm10.masked</a>, <a href="../../data/annotation/html/BSgenome.Mmusculus.UCSC.mm39.html">BSgenome.Mmusculus.UCSC.mm39</a>, <a href="../../data/annotation/html/BSgenome.Mmusculus.UCSC.mm8.html">BSgenome.Mmusculus.UCSC.mm8</a>, <a href="../../data/annotation/html/BSgenome.Mmusculus.UCSC.mm8.masked.html">BSgenome.Mmusculus.UCSC.mm8.masked</a>, <a href="../../data/annotation/html/BSgenome.Mmusculus.UCSC.mm9.html">BSgenome.Mmusculus.UCSC.mm9</a>, <a href="../../data/annotation/html/BSgenome.Mmusculus.UCSC.mm9.masked.html">BSgenome.Mmusculus.UCSC.mm9.masked</a>, <a href="../../data/annotation/html/BSgenome.Osativa.MSU.MSU7.html">BSgenome.Osativa.MSU.MSU7</a>, <a href="../../data/annotation/html/BSgenome.Ppaniscus.UCSC.panPan1.html">BSgenome.Ppaniscus.UCSC.panPan1</a>, <a href="../../data/annotation/html/BSgenome.Ppaniscus.UCSC.panPan2.html">BSgenome.Ppaniscus.UCSC.panPan2</a>, <a href="../../data/annotation/html/BSgenome.Ptroglodytes.UCSC.panTro2.html">BSgenome.Ptroglodytes.UCSC.panTro2</a>, <a href="../../data/annotation/html/BSgenome.Ptroglodytes.UCSC.panTro2.masked.html">BSgenome.Ptroglodytes.UCSC.panTro2.masked</a>, <a href="../../data/annotation/html/BSgenome.Ptroglodytes.UCSC.panTro3.html">BSgenome.Ptroglodytes.UCSC.panTro3</a>, <a href="../../data/annotation/html/BSgenome.Ptroglodytes.UCSC.panTro3.masked.html">BSgenome.Ptroglodytes.UCSC.panTro3.masked</a>, <a href="../../data/annotation/html/BSgenome.Ptroglodytes.UCSC.panTro5.html">BSgenome.Ptroglodytes.UCSC.panTro5</a>, <a href="../../data/annotation/html/BSgenome.Ptroglodytes.UCSC.panTro6.html">BSgenome.Ptroglodytes.UCSC.panTro6</a>, <a href="../../data/annotation/html/BSgenome.Rnorvegicus.UCSC.rn4.html">BSgenome.Rnorvegicus.UCSC.rn4</a>, <a href="../../data/annotation/html/BSgenome.Rnorvegicus.UCSC.rn4.masked.html">BSgenome.Rnorvegicus.UCSC.rn4.masked</a>, <a href="../../data/annotation/html/BSgenome.Rnorvegicus.UCSC.rn5.html">BSgenome.Rnorvegicus.UCSC.rn5</a>, <a href="../../data/annotation/html/BSgenome.Rnorvegicus.UCSC.rn5.masked.html">BSgenome.Rnorvegicus.UCSC.rn5.masked</a>, <a href="../../data/annotation/html/BSgenome.Rnorvegicus.UCSC.rn6.html">BSgenome.Rnorvegicus.UCSC.rn6</a>, <a href="../../data/annotation/html/BSgenome.Rnorvegicus.UCSC.rn7.html">BSgenome.Rnorvegicus.UCSC.rn7</a>, <a href="../../data/annotation/html/BSgenome.Scerevisiae.UCSC.sacCer1.html">BSgenome.Scerevisiae.UCSC.sacCer1</a>, <a href="../../data/annotation/html/BSgenome.Scerevisiae.UCSC.sacCer2.html">BSgenome.Scerevisiae.UCSC.sacCer2</a>, <a href="../../data/annotation/html/BSgenome.Scerevisiae.UCSC.sacCer3.html">BSgenome.Scerevisiae.UCSC.sacCer3</a>, <a href="../../data/annotation/html/BSgenome.Sscrofa.UCSC.susScr11.html">BSgenome.Sscrofa.UCSC.susScr11</a>, <a href="../../data/annotation/html/BSgenome.Sscrofa.UCSC.susScr3.html">BSgenome.Sscrofa.UCSC.susScr3</a>, <a href="../../data/annotation/html/BSgenome.Sscrofa.UCSC.susScr3.masked.html">BSgenome.Sscrofa.UCSC.susScr3.masked</a>, <a href="../../data/annotation/html/BSgenome.Tgondii.ToxoDB.7.0.html">BSgenome.Tgondii.ToxoDB.7.0</a>, <a href="../../data/annotation/html/BSgenome.Tguttata.UCSC.taeGut1.html">BSgenome.Tguttata.UCSC.taeGut1</a>, <a href="../../data/annotation/html/BSgenome.Tguttata.UCSC.taeGut1.masked.html">BSgenome.Tguttata.UCSC.taeGut1.masked</a>, <a href="../../data/annotation/html/BSgenome.Tguttata.UCSC.taeGut2.html">BSgenome.Tguttata.UCSC.taeGut2</a>, <a href="../../data/annotation/html/BSgenome.Vvinifera.URGI.IGGP12Xv0.html">BSgenome.Vvinifera.URGI.IGGP12Xv0</a>, <a href="../../data/annotation/html/BSgenome.Vvinifera.URGI.IGGP12Xv2.html">BSgenome.Vvinifera.URGI.IGGP12Xv2</a>, <a href="../../data/annotation/html/BSgenome.Vvinifera.URGI.IGGP8X.html">BSgenome.Vvinifera.URGI.IGGP8X</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP144.GRCh37.html">SNPlocs.Hsapiens.dbSNP144.GRCh37</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP144.GRCh38.html">SNPlocs.Hsapiens.dbSNP144.GRCh38</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP149.GRCh38.html">SNPlocs.Hsapiens.dbSNP149.GRCh38</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP150.GRCh38.html">SNPlocs.Hsapiens.dbSNP150.GRCh38</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP155.GRCh37.html">SNPlocs.Hsapiens.dbSNP155.GRCh37</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP155.GRCh38.html">SNPlocs.Hsapiens.dbSNP155.GRCh38</a>, <a href="../../data/annotation/html/XtraSNPlocs.Hsapiens.dbSNP144.GRCh37.html">XtraSNPlocs.Hsapiens.dbSNP144.GRCh37</a>, <a href="../../data/annotation/html/XtraSNPlocs.Hsapiens.dbSNP144.GRCh38.html">XtraSNPlocs.Hsapiens.dbSNP144.GRCh38</a>, <a href="../../data/experiment/html/leeBamViews.html">leeBamViews</a>, <a href="../../workflows/html/annotation.html">annotation</a></td> </tr> <tr> <td>Imports Me</td> <td><a href="../../bioc/html/AllelicImbalance.html">AllelicImbalance</a>, <a href="../../bioc/html/appreci8R.html">appreci8R</a>, <a href="../../bioc/html/ATACseqQC.html">ATACseqQC</a>, <a href="../../bioc/html/atSNP.html">atSNP</a>, <a href="../../bioc/html/BEAT.html">BEAT</a>, <a href="../../bioc/html/bsseq.html">bsseq</a>, <a href="../../bioc/html/BUSpaRse.html">BUSpaRse</a>, <a href="../../bioc/html/CAGEr.html">CAGEr</a>, <a href="../../bioc/html/chromVAR.html">chromVAR</a>, <a href="../../bioc/html/cleanUpdTSeq.html">cleanUpdTSeq</a>, <a href="../../bioc/html/CleanUpRNAseq.html">CleanUpRNAseq</a>, <a href="../../bioc/html/cliProfiler.html">cliProfiler</a>, <a href="../../bioc/html/crisprBowtie.html">crisprBowtie</a>, <a href="../../bioc/html/crisprBwa.html">crisprBwa</a>, <a href="../../bioc/html/crisprDesign.html">crisprDesign</a>, <a href="../../bioc/html/CRISPRseek.html">CRISPRseek</a>, <a href="../../bioc/html/crisprShiny.html">crisprShiny</a>, <a href="../../bioc/html/crisprViz.html">crisprViz</a>, <a href="../../bioc/html/diffHic.html">diffHic</a>, <a href="../../bioc/html/enhancerHomologSearch.html">enhancerHomologSearch</a>, <a href="../../bioc/html/esATAC.html">esATAC</a>, <a href="../../bioc/html/EventPointer.html">EventPointer</a>, <a href="../../bioc/html/FRASER.html">FRASER</a>, <a href="../../bioc/html/gcapc.html">gcapc</a>, <a href="../../bioc/html/genomation.html">genomation</a>, <a href="../../bioc/html/GenVisR.html">GenVisR</a>, <a href="../../bioc/html/ggbio.html">ggbio</a>, <a href="../../bioc/html/gmapR.html">gmapR</a>, <a href="../../bioc/html/GreyListChIP.html">GreyListChIP</a>, <a href="../../bioc/html/GUIDEseq.html">GUIDEseq</a>, <a href="../../bioc/html/Gviz.html">Gviz</a>, <a href="../../bioc/html/hiAnnotator.html">hiAnnotator</a>, <a href="../../bioc/html/IsoformSwitchAnalyzeR.html">IsoformSwitchAnalyzeR</a>, <a href="../../bioc/html/katdetectr.html">katdetectr</a>, <a href="../../bioc/html/m6Aboost.html">m6Aboost</a>, <a href="../../bioc/html/MADSEQ.html">MADSEQ</a>, <a href="../../bioc/html/methodical.html">methodical</a>, <a href="../../bioc/html/methrix.html">methrix</a>, <a href="../../bioc/html/MethylSeekR.html">MethylSeekR</a>, <a href="../../bioc/html/MMDiff2.html">MMDiff2</a>, <a href="../../bioc/html/monaLisa.html">monaLisa</a>, <a href="../../bioc/html/Motif2Site.html">Motif2Site</a>, <a href="../../bioc/html/motifbreakR.html">motifbreakR</a>, <a href="../../bioc/html/motifmatchr.html">motifmatchr</a>, <a href="../../bioc/html/msgbsR.html">msgbsR</a>, <a href="../../bioc/html/multicrispr.html">multicrispr</a>, <a href="../../bioc/html/MungeSumstats.html">MungeSumstats</a>, <a href="../../bioc/html/musicatk.html">musicatk</a>, <a href="../../bioc/html/MutationalPatterns.html">MutationalPatterns</a>, <a href="../../bioc/html/ORFik.html">ORFik</a>, <a href="../../bioc/html/PING.html">PING</a>, <a href="../../bioc/html/pipeFrame.html">pipeFrame</a>, <a href="../../bioc/html/podkat.html">podkat</a>, <a href="../../bioc/html/qsea.html">qsea</a>, <a href="../../bioc/html/QuasR.html">QuasR</a>, <a href="../../bioc/html/R453Plus1Toolbox.html">R453Plus1Toolbox</a>, <a href="../../bioc/html/raer.html">raer</a>, <a href="../../bioc/html/RAIDS.html">RAIDS</a>, <a href="../../bioc/html/RareVariantVis.html">RareVariantVis</a>, <a href="../../bioc/html/RCAS.html">RCAS</a>, <a href="../../bioc/html/regioneR.html">regioneR</a>, <a href="../../bioc/html/REMP.html">REMP</a>, <a href="../../bioc/html/Repitools.html">Repitools</a>, <a href="../../bioc/html/RESOLVE.html">RESOLVE</a>, <a href="../../bioc/html/ribosomeProfilingQC.html">ribosomeProfilingQC</a>, <a href="../../bioc/html/RNAmodR.html">RNAmodR</a>, <a href="../../bioc/html/scmeth.html">scmeth</a>, <a href="../../bioc/html/SCOPE.html">SCOPE</a>, <a href="../../bioc/html/seqArchRplus.html">seqArchRplus</a>, <a href="../../bioc/html/signeR.html">signeR</a>, <a href="../../bioc/html/SigsPack.html">SigsPack</a>, <a href="../../bioc/html/SparseSignatures.html">SparseSignatures</a>, <a href="../../bioc/html/spatzie.html">spatzie</a>, <a href="../../bioc/html/spiky.html">spiky</a>, <a href="../../bioc/html/SpliceWiz.html">SpliceWiz</a>, <a href="../../bioc/html/TAPseq.html">TAPseq</a>, <a href="../../bioc/html/TFBSTools.html">TFBSTools</a>, <a href="../../bioc/html/transmogR.html">transmogR</a>, <a href="../../bioc/html/tRNAscanImport.html">tRNAscanImport</a>, <a href="../../bioc/html/Ularcirc.html">Ularcirc</a>, <a href="../../bioc/html/UMI4Cats.html">UMI4Cats</a>, <a href="../../bioc/html/VariantAnnotation.html">VariantAnnotation</a>, <a href="../../bioc/html/VariantFiltering.html">VariantFiltering</a>, <a href="../../bioc/html/VariantTools.html">VariantTools</a>, <a href="../../bioc/html/XNAString.html">XNAString</a>, <a href="../../data/annotation/html/BSgenome.Alyrata.JGI.v1.html">BSgenome.Alyrata.JGI.v1</a>, <a href="../../data/annotation/html/BSgenome.Amellifera.BeeBase.assembly4.html">BSgenome.Amellifera.BeeBase.assembly4</a>, <a href="../../data/annotation/html/BSgenome.Amellifera.NCBI.AmelHAv3.1.html">BSgenome.Amellifera.NCBI.AmelHAv3.1</a>, <a href="../../data/annotation/html/BSgenome.Amellifera.UCSC.apiMel2.html">BSgenome.Amellifera.UCSC.apiMel2</a>, <a href="../../data/annotation/html/BSgenome.Amellifera.UCSC.apiMel2.masked.html">BSgenome.Amellifera.UCSC.apiMel2.masked</a>, <a href="../../data/annotation/html/BSgenome.Aofficinalis.NCBI.V1.html">BSgenome.Aofficinalis.NCBI.V1</a>, <a href="../../data/annotation/html/BSgenome.Athaliana.TAIR.04232008.html">BSgenome.Athaliana.TAIR.04232008</a>, <a href="../../data/annotation/html/BSgenome.Athaliana.TAIR.TAIR9.html">BSgenome.Athaliana.TAIR.TAIR9</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau3.html">BSgenome.Btaurus.UCSC.bosTau3</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau3.masked.html">BSgenome.Btaurus.UCSC.bosTau3.masked</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau4.html">BSgenome.Btaurus.UCSC.bosTau4</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau4.masked.html">BSgenome.Btaurus.UCSC.bosTau4.masked</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau6.html">BSgenome.Btaurus.UCSC.bosTau6</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau6.masked.html">BSgenome.Btaurus.UCSC.bosTau6.masked</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau8.html">BSgenome.Btaurus.UCSC.bosTau8</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau9.html">BSgenome.Btaurus.UCSC.bosTau9</a>, <a href="../../data/annotation/html/BSgenome.Btaurus.UCSC.bosTau9.masked.html">BSgenome.Btaurus.UCSC.bosTau9.masked</a>, <a href="../../data/annotation/html/BSgenome.Carietinum.NCBI.v1.html">BSgenome.Carietinum.NCBI.v1</a>, <a href="../../data/annotation/html/BSgenome.Celegans.UCSC.ce10.html">BSgenome.Celegans.UCSC.ce10</a>, <a href="../../data/annotation/html/BSgenome.Celegans.UCSC.ce11.html">BSgenome.Celegans.UCSC.ce11</a>, <a href="../../data/annotation/html/BSgenome.Celegans.UCSC.ce2.html">BSgenome.Celegans.UCSC.ce2</a>, <a href="../../data/annotation/html/BSgenome.Celegans.UCSC.ce6.html">BSgenome.Celegans.UCSC.ce6</a>, <a href="../../data/annotation/html/BSgenome.Cfamiliaris.UCSC.canFam2.html">BSgenome.Cfamiliaris.UCSC.canFam2</a>, <a href="../../data/annotation/html/BSgenome.Cfamiliaris.UCSC.canFam2.masked.html">BSgenome.Cfamiliaris.UCSC.canFam2.masked</a>, <a href="../../data/annotation/html/BSgenome.Cfamiliaris.UCSC.canFam3.html">BSgenome.Cfamiliaris.UCSC.canFam3</a>, <a href="../../data/annotation/html/BSgenome.Cfamiliaris.UCSC.canFam3.masked.html">BSgenome.Cfamiliaris.UCSC.canFam3.masked</a>, <a href="../../data/annotation/html/BSgenome.Cjacchus.UCSC.calJac3.html">BSgenome.Cjacchus.UCSC.calJac3</a>, <a href="../../data/annotation/html/BSgenome.Cjacchus.UCSC.calJac4.html">BSgenome.Cjacchus.UCSC.calJac4</a>, <a href="../../data/annotation/html/BSgenome.CneoformansVarGrubiiKN99.NCBI.ASM221672v1.html">BSgenome.CneoformansVarGrubiiKN99.NCBI.ASM221672v1</a>, <a href="../../data/annotation/html/BSgenome.Creinhardtii.JGI.v5.6.html">BSgenome.Creinhardtii.JGI.v5.6</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm2.html">BSgenome.Dmelanogaster.UCSC.dm2</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm2.masked.html">BSgenome.Dmelanogaster.UCSC.dm2.masked</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm3.html">BSgenome.Dmelanogaster.UCSC.dm3</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm3.masked.html">BSgenome.Dmelanogaster.UCSC.dm3.masked</a>, <a href="../../data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm6.html">BSgenome.Dmelanogaster.UCSC.dm6</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer10.html">BSgenome.Drerio.UCSC.danRer10</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer11.html">BSgenome.Drerio.UCSC.danRer11</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer5.html">BSgenome.Drerio.UCSC.danRer5</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer5.masked.html">BSgenome.Drerio.UCSC.danRer5.masked</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer6.html">BSgenome.Drerio.UCSC.danRer6</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer6.masked.html">BSgenome.Drerio.UCSC.danRer6.masked</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer7.html">BSgenome.Drerio.UCSC.danRer7</a>, <a href="../../data/annotation/html/BSgenome.Drerio.UCSC.danRer7.masked.html">BSgenome.Drerio.UCSC.danRer7.masked</a>, <a href="../../data/annotation/html/BSgenome.Dvirilis.Ensembl.dvircaf1.html">BSgenome.Dvirilis.Ensembl.dvircaf1</a>, <a href="../../data/annotation/html/BSgenome.Ecoli.NCBI.20080805.html">BSgenome.Ecoli.NCBI.20080805</a>, <a 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href="../../data/annotation/html/MafDb.ExAC.r1.0.GRCh38.html">MafDb.ExAC.r1.0.GRCh38</a>, <a href="../../data/annotation/html/MafDb.ExAC.r1.0.hs37d5.html">MafDb.ExAC.r1.0.hs37d5</a>, <a href="../../data/annotation/html/MafDb.ExAC.r1.0.nonTCGA.GRCh38.html">MafDb.ExAC.r1.0.nonTCGA.GRCh38</a>, <a href="../../data/annotation/html/MafDb.ExAC.r1.0.nonTCGA.hs37d5.html">MafDb.ExAC.r1.0.nonTCGA.hs37d5</a>, <a href="../../data/annotation/html/MafDb.gnomAD.r2.1.GRCh38.html">MafDb.gnomAD.r2.1.GRCh38</a>, <a href="../../data/annotation/html/MafDb.gnomAD.r2.1.hs37d5.html">MafDb.gnomAD.r2.1.hs37d5</a>, <a href="../../data/annotation/html/MafDb.gnomADex.r2.1.GRCh38.html">MafDb.gnomADex.r2.1.GRCh38</a>, <a href="../../data/annotation/html/MafDb.gnomADex.r2.1.hs37d5.html">MafDb.gnomADex.r2.1.hs37d5</a>, <a href="../../data/annotation/html/MafDb.TOPMed.freeze5.hg19.html">MafDb.TOPMed.freeze5.hg19</a>, <a href="../../data/annotation/html/MafDb.TOPMed.freeze5.hg38.html">MafDb.TOPMed.freeze5.hg38</a>, <a href="../../data/annotation/html/MafH5.gnomAD.v4.0.GRCh38.html">MafH5.gnomAD.v4.0.GRCh38</a>, <a href="../../data/annotation/html/phastCons100way.UCSC.hg19.html">phastCons100way.UCSC.hg19</a>, <a href="../../data/annotation/html/phastCons100way.UCSC.hg38.html">phastCons100way.UCSC.hg38</a>, <a href="../../data/annotation/html/phastCons7way.UCSC.hg38.html">phastCons7way.UCSC.hg38</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP144.GRCh37.html">SNPlocs.Hsapiens.dbSNP144.GRCh37</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP144.GRCh38.html">SNPlocs.Hsapiens.dbSNP144.GRCh38</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP149.GRCh38.html">SNPlocs.Hsapiens.dbSNP149.GRCh38</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP150.GRCh38.html">SNPlocs.Hsapiens.dbSNP150.GRCh38</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP155.GRCh37.html">SNPlocs.Hsapiens.dbSNP155.GRCh37</a>, <a href="../../data/annotation/html/SNPlocs.Hsapiens.dbSNP155.GRCh38.html">SNPlocs.Hsapiens.dbSNP155.GRCh38</a>, <a href="../../data/annotation/html/XtraSNPlocs.Hsapiens.dbSNP144.GRCh37.html">XtraSNPlocs.Hsapiens.dbSNP144.GRCh37</a>, <a href="../../data/annotation/html/XtraSNPlocs.Hsapiens.dbSNP144.GRCh38.html">XtraSNPlocs.Hsapiens.dbSNP144.GRCh38</a>, <a href="../../data/experiment/html/GenomicDistributionsData.html">GenomicDistributionsData</a>, <a class="cran_package" href="http://cran.rstudio.com/web/packages/ICAMS/index.html">ICAMS</a>, <a class="cran_package" href="http://cran.rstudio.com/web/packages/MOCHA/index.html">MOCHA</a>, <a class="cran_package" href="http://cran.rstudio.com/web/packages/revert/index.html">revert</a>, <a class="cran_package" href="http://cran.rstudio.com/web/packages/simMP/index.html">simMP</a></td> </tr> <tr> <td>Suggests Me</td> <td><a href="../../bioc/html/Biostrings.html">Biostrings</a>, <a href="../../bioc/html/biovizBase.html">biovizBase</a>, <a href="../../bioc/html/ChIPpeakAnno.html">ChIPpeakAnno</a>, <a href="../../bioc/html/chipseq.html">chipseq</a>, <a href="../../bioc/html/DegCre.html">DegCre</a>, <a href="../../bioc/html/DiffBind.html">DiffBind</a>, <a href="../../bioc/html/easyRNASeq.html">easyRNASeq</a>, <a href="../../bioc/html/eisaR.html">eisaR</a>, <a href="../../bioc/html/factR.html">factR</a>, <a href="../../bioc/html/GeneRegionScan.html">GeneRegionScan</a>, <a href="../../bioc/html/GenomeInfoDb.html">GenomeInfoDb</a>, <a href="../../bioc/html/GenomicAlignments.html">GenomicAlignments</a>, <a href="../../bioc/html/GenomicFeatures.html">GenomicFeatures</a>, <a href="../../bioc/html/GenomicRanges.html">GenomicRanges</a>, <a href="../../bioc/html/maftools.html">maftools</a>, <a href="../../bioc/html/metaseqR2.html">metaseqR2</a>, <a href="../../bioc/html/MiRaGE.html">MiRaGE</a>, <a href="../../bioc/html/plotgardener.html">plotgardener</a>, <a href="../../bioc/html/ProteoDisco.html">ProteoDisco</a>, <a href="../../bioc/html/PWMEnrich.html">PWMEnrich</a>, <a href="../../bioc/html/QDNAseq.html">QDNAseq</a>, <a href="../../bioc/html/recoup.html">recoup</a>, <a href="../../bioc/html/RiboCrypt.html">RiboCrypt</a>, <a href="../../bioc/html/rtracklayer.html">rtracklayer</a>, <a href="../../bioc/html/sitadela.html">sitadela</a>, <a class="cran_package" href="http://cran.rstudio.com/web/packages/gkmSVM/index.html">gkmSVM</a>, <a class="cran_package" href="http://cran.rstudio.com/web/packages/MARVEL/index.html">MARVEL</a>, <a class="cran_package" href="http://cran.rstudio.com/web/packages/sigminer/index.html">sigminer</a>, <a class="cran_package" href="http://cran.rstudio.com/web/packages/Signac/index.html">Signac</a></td> </tr> <tr> <td>Links To Me</td> <td></td> </tr> <tr> <td>Build Report</td> <td><a href="https://bioconductor.org/checkResults/3.20/bioc-LATEST/BSgenome/">Build Report</a></td> </tr> </table> </details> <h3 id="archives">Package Archives</h3> <p>Follow <a href="/install/#install-bioconductor-packages">Installation</a> instructions to use this package in your R session.</p> <table class="full-width"> <tr> <td>Source Package</td> <td class="rpack"> <a onClick="javascript: pageTracker._trackPageview('../src/contrib/BSgenome_1.74.0.tar.gz'); " href="../src/contrib/BSgenome_1.74.0.tar.gz">BSgenome_1.74.0.tar.gz</a> </td> </tr> <tr> <td>Windows Binary (x86_64)</td> <td class="rpack"> <a onClick="javascript: pageTracker._trackPageview('../bin/windows/contrib/4.4/BSgenome_1.74.0.zip'); " href="../bin/windows/contrib/4.4/BSgenome_1.74.0.zip"> BSgenome_1.74.0.zip</a> </td> </tr> <tr> <td>macOS Binary (x86_64)</td> <td class="rpack"> <a onClick="javascript: pageTracker._trackPageview('../bin/macosx/big-sur-x86_64/contrib/4.4/BSgenome_1.74.0.tgz'); " href="../bin/macosx/big-sur-x86_64/contrib/4.4/BSgenome_1.74.0.tgz">BSgenome_1.74.0.tgz</a> </td> </tr> <tr> <td>macOS Binary (arm64)</td> <td class="rpack"> <a onClick="javascript: pageTracker._trackPageview('../bin/macosx/big-sur-arm64/contrib/4.4/BSgenome_1.74.0.tgz'); " href="../bin/macosx/big-sur-arm64/contrib/4.4/BSgenome_1.74.0.tgz">BSgenome_1.74.0.tgz</a> </td> </tr> <tr> <td id="svn-source">Source Repository</td> <td>git clone https://git.bioconductor.org/packages/BSgenome</td> </tr> <tr> <td id="svn-source">Source Repository (Developer Access)</td> <td>git clone git@git.bioconductor.org:packages/BSgenome</td> </tr> <tr> <td>Bioc Package Browser</td> <td><a href="https://code.bioconductor.org/browse/BSgenome/RELEASE_3_20/">https://code.bioconductor.org/browse/BSgenome/</a></td> </tr> <tr> <td>Package Short Url</td> <td><a title="For citation in publications, etc., please use DOI: 10.18129/B9.bioc.BSgenome" href="/packages/BSgenome/">https://bioconductor.org/packages/BSgenome/</a></td> </tr> <tr> <td>Package Downloads Report</td> <td><a href="http://bioconductor.org/packages/stats/bioc/BSgenome/">Download Stats</a></td> </tr> </table> </div> </section> 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