- Home
- Bioconductor 3.5
- Annotation Packages
- BSgenome.Drerio.UCSC.danRer5.masked
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("BSgenome.Drerio.UCSC.danRer5.masked")
In most cases, you don't need to download the package archive at all.
BSgenome.Drerio.UCSC.danRer5.masked
|
|
|
Full masked genome sequences for Danio rerio (UCSC version danRer5)
Bioconductor version: Release (3.5)
Full genome sequences for Danio rerio (Zebrafish) as provided by UCSC (danRer5, Jul. 2007) and stored in Biostrings objects. The sequences are the same as in BSgenome.Drerio.UCSC.danRer5, 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.Drerio.UCSC.danRer5.masked")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("BSgenome.Drerio.UCSC.danRer5.masked")
Documentation
| Reference Manual |
Details
| biocViews | AnnotationData, BSgenome, Danio_rerio, Genetics |
| Version | 1.3.99 |
| License | Artistic-2.0 |
| Depends | BSgenome(>= 1.31.8), BSgenome.Drerio.UCSC.danRer5 |
| Imports | BSgenome, BSgenome.Drerio.UCSC.danRer5 |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | BSgenome.Drerio.UCSC.danRer5.masked_1.3.99.tar.gz |
| Windows Binary | |
| Mac OS X 10.11 (El Capitan) | |
| Package Short Url | http://bioconductor.org/packages/BSgenome.Drerio.UCSC.danRer5.masked/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
