BSgenome.Ggallus.UCSC.galGal3.masked

This is the released version of BSgenome.Ggallus.UCSC.galGal3.masked; for the devel version, see BSgenome.Ggallus.UCSC.galGal3.masked.

All versions

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 Gallus gallus (UCSC version galGal3)

Bioconductor version: Release (3.23)

Full genome sequences for Gallus gallus (Chicken) as provided by UCSC (galGal3, May 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Ggallus.UCSC.galGal3, 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.Ggallus.UCSC.galGal3.masked")):

The Bioconductor Dev Team. BSgenome.Ggallus.UCSC.galGal3.masked: Full masked genome sequences for Gallus gallus (UCSC version galGal3). doi:10.18129/B9.bioc.BSgenome.Ggallus.UCSC.galGal3.masked, R package version 1.3.99, https://bioconductor.org/packages/BSgenome.Ggallus.UCSC.galGal3.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.Ggallus.UCSC.galGal3.masked")

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

Documentation

No vignettes available
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	AnnotationData, BSgenome, Gallus_gallus, Genetics
Version	1.3.99
In Bioconductor since	BioC 2.14 (R-3.1) (12.5 years)
License	Artistic-2.0
Depends	BSgenome (>= 1.31.8), BSgenome.Ggallus.UCSC.galGal3
Imports	BSgenome, BSgenome.Ggallus.UCSC.galGal3
System Requirements
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Package Archives

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

Source Package	BSgenome.Ggallus.UCSC.galGal3.masked_1.3.99.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Package Short Url	https://bioconductor.org/packages/BSgenome.Ggallus.UCSC.galGal3.masked/
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