BSgenome.Hsapiens.UCSC.hg38.masked
This is the released version of BSgenome.Hsapiens.UCSC.hg38.masked; for the devel version, see BSgenome.Hsapiens.UCSC.hg38.masked.
All Bioconductor versions of BSgenome.Hsapiens.UCSC.hg38.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
Full masked genomic sequences for Homo sapiens (UCSC version hg38)
Bioconductor version: 3.23 · Package version: 1.4.5
Full genomic sequences for Homo sapiens as provided by UCSC (genome hg38, based on assembly GRCh38.p14 since 2023/01/31). The sequences are the same as in BSgenome.Hsapiens.UCSC.hg38, 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. The sequences are stored in MaskedDNAString objects.
Author: The Bioconductor Dev Team
Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>
Citation
From within R, enter citation("BSgenome.Hsapiens.UCSC.hg38.masked"):
The Bioconductor Dev Team. BSgenome.Hsapiens.UCSC.hg38.masked: Full masked genomic sequences for Homo sapiens (UCSC version hg38). doi:10.18129/B9.bioc.BSgenome.Hsapiens.UCSC.hg38.masked, R package version 1.4.5, https://bioconductor.org/packages/BSgenome.Hsapiens.UCSC.hg38.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.Hsapiens.UCSC.hg38.masked")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.4.5 |
| License | Artistic-2.0 |
| Last updated | 2023-02-08 |
| In Bioconductor since | BioC 3.1 (R-3.2) (11 years) |
| Downloads rank | 91 of 928 |
| Source branch | RELEASE_3_23 |
| biocViews | AnnotationData, BSgenome, Genetics, Homo_sapiens |
| Package Short Url | https://bioconductor.org/packages/BSgenome.Hsapiens.UCSC.hg38.masked/ |
Documentation
| Reference Manual |
Download
Follow the installation instructions to use this package in your R session.
| Source package | BSgenome.Hsapiens.UCSC.hg38.masked_1.4.5.tar.gz |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 4.2.0), GenomeInfoDb (>= 1.34.9), BSgenome (>= 1.66.2), BSgenome.Hsapiens.UCSC.hg38
Reverse dependencies
Suggests Me (4): BSgenome, motifbreakR, podkat, spiky