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BSgenome.Sscrofa.UCSC.susScr3.masked

This is the development version of BSgenome.Sscrofa.UCSC.susScr3.masked; for the stable release version, see BSgenome.Sscrofa.UCSC.susScr3.masked.

Full masked genome sequences for Sus scrofa (UCSC version susScr3)


Bioconductor version: Development (3.20)

Full genome sequences for Sus scrofa (Pig) as provided by UCSC (susScr3, Aug. 2011) and stored in Biostrings objects. The sequences are the same as in BSgenome.Sscrofa.UCSC.susScr3, except that each of them has the 4 following masks on top: (1) the mask of assembly gaps (AGAPS mask), (2) the mask of intra-contig ambiguities (AMB mask), (3) the mask of repeats from RepeatMasker (RM mask), and (4) the mask of repeats from Tandem Repeats Finder (TRF mask). Only the AGAPS and AMB masks are "active" by default.

Author: The Bioconductor Dev Team

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

Citation (from within R, enter citation("BSgenome.Sscrofa.UCSC.susScr3.masked")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("BSgenome.Sscrofa.UCSC.susScr3.masked")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews AnnotationData, BSgenome, Genetics, Sus_scrofa
Version 1.3.99
License Artistic-2.0
Depends BSgenome(>= 1.31.11), BSgenome.Sscrofa.UCSC.susScr3
Imports BSgenome, BSgenome.Sscrofa.UCSC.susScr3
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package BSgenome.Sscrofa.UCSC.susScr3.masked_1.3.99.tar.gz
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macOS Binary (x86_64)
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Package Short Url https://bioconductor.org/packages/BSgenome.Sscrofa.UCSC.susScr3.masked/
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