BSgenome.Sscrofa.UCSC.susScr3.masked
Full masked genome sequences for Sus scrofa (UCSC version susScr3)
Bioconductor version: 3.24 · Package version: 1.3.99
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("BSgenome.Sscrofa.UCSC.susScr3.masked")Details
| Maintainer | Bioconductor Package Maintainer <maintainer@bioconductor.org> |
| Author | The Bioconductor Dev Team |
| License | Artistic-2.0 |
| Source branch | devel |
| biocViews | AnnotationData, BSgenome, Genetics, Sus_scrofa |
| Package Short Url | https://bioconductor.org/packages/BSgenome.Sscrofa.UCSC.susScr3.masked/ |
Citation
From within R, enter citation("BSgenome.Sscrofa.UCSC.susScr3.masked"):
The Bioconductor Dev Team. BSgenome.Sscrofa.UCSC.susScr3.masked: Full masked genome sequences for Sus scrofa (UCSC version susScr3). doi:10.18129/B9.bioc.BSgenome.Sscrofa.UCSC.susScr3.masked, R package version 1.3.99, https://bioconductor.org/packages/BSgenome.Sscrofa.UCSC.susScr3.masked.
Generated from the package metadata; it may differ from the package's own citation.
Download
Follow the installation instructions to use this package in your R session.
| Source package | BSgenome.Sscrofa.UCSC.susScr3.masked_1.3.99.tar.gz |
Dependencies
Depends: BSgenome (>= 1.31.11), BSgenome.Sscrofa.UCSC.susScr3
Imports: BSgenome, BSgenome.Sscrofa.UCSC.susScr3