BSgenome.Mmulatta.UCSC.rheMac2.masked
This is the released version of BSgenome.Mmulatta.UCSC.rheMac2.masked; for the devel version, see BSgenome.Mmulatta.UCSC.rheMac2.masked.
All Bioconductor versions of BSgenome.Mmulatta.UCSC.rheMac2.masked
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14
Full masked genome sequences for Macaca mulatta (UCSC version rheMac2)
Bioconductor version: 3.23 · Package version: 1.3.99
Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac2, Jan. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Mmulatta.UCSC.rheMac2, 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. NOTE: In most assemblies available at UCSC, Tandem Repeats Finder repeats were filtered to retain only the repeats with period <= 12. However, the filtering was omitted for this assembly, so the TRF masks contain all Tandem Repeats Finder results.
Author: The Bioconductor Dev Team
Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
Citation
From within R, enter citation("BSgenome.Mmulatta.UCSC.rheMac2.masked"):
The Bioconductor Dev Team. BSgenome.Mmulatta.UCSC.rheMac2.masked: Full masked genome sequences for Macaca mulatta (UCSC version rheMac2). doi:10.18129/B9.bioc.BSgenome.Mmulatta.UCSC.rheMac2.masked, R package version 1.3.99, https://bioconductor.org/packages/BSgenome.Mmulatta.UCSC.rheMac2.masked.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("BSgenome.Mmulatta.UCSC.rheMac2.masked")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.3.99 |
| License | Artistic-2.0 |
| Last updated | 2014-01-08 |
| In Bioconductor since | BioC 2.14 (R-3.1) (12 years) |
| Downloads rank | 834 of 928 |
| Source branch | RELEASE_3_23 |
| biocViews | AnnotationData, BSgenome, Genetics, Macaca_mulatta |
| Package Short Url | https://bioconductor.org/packages/BSgenome.Mmulatta.UCSC.rheMac2.masked/ |
Documentation
| Reference Manual |
Download
Follow the installation instructions to use this package in your R session.
| Source package | BSgenome.Mmulatta.UCSC.rheMac2.masked_1.3.99.tar.gz |
| Package Downloads Report | Download Stats |
Dependencies
Depends: BSgenome (>= 1.31.8), BSgenome.Mmulatta.UCSC.rheMac2
Imports: BSgenome, BSgenome.Mmulatta.UCSC.rheMac2