BSgenome.Hsapiens.UCSC.hg19.masked
This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see BSgenome.Hsapiens.UCSC.hg19.masked.
Full masked genome sequences for Homo sapiens (UCSC version hg19, based on GRCh37.p13)
Bioconductor version: 3.11
Full genome sequences for Homo sapiens (Human) as provided by UCSC (hg19, based on GRCh37.p13) and stored in Biostrings objects. The sequences are the same as in BSgenome.Hsapiens.UCSC.hg19, 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("BSgenome.Hsapiens.UCSC.hg19.masked")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("BSgenome.Hsapiens.UCSC.hg19.masked")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | AnnotationData, BSgenome, Genetics, Homo_sapiens |
| Version | 1.3.993 |
| License | Artistic-2.0 |
| Depends | R (>= 3.5.0), BSgenome(>= 1.54.0), BSgenome.Hsapiens.UCSC.hg19 |
| Imports | BSgenome, BSgenome.Hsapiens.UCSC.hg19 |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | CNVfilteR, CopyNumberPlots, karyoploteR, r3Cseq, regioneR, RSVSim, SNPlocs.Hsapiens.dbSNP142.GRCh37 |
| Links To Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | BSgenome.Hsapiens.UCSC.hg19.masked_1.3.993.tar.gz |
| Windows Binary | |
| macOS 10.13 (High Sierra) | |
| Package Short Url | https://bioconductor.org/packages/BSgenome.Hsapiens.UCSC.hg19.masked/ |
| Package Downloads Report | Download Stats |