BSgenome.Ptroglodytes.UCSC.panTro3.masked

Full masked genome sequences for Pan troglodytes (UCSC version panTro3)

Bioconductor version: Release (2.14)

Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro3, Oct. 2010) and stored in Biostrings objects. The sequences are the same as in BSgenome.Ptroglodytes.UCSC.panTro3, 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>

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("BSgenome.Ptroglodytes.UCSC.panTro3.masked")

Citation (from within R, enter citation("BSgenome.Ptroglodytes.UCSC.panTro3.masked")):

Documentation

PDF   Reference Manual

Details

biocViews AnnotationData, BSgenome, Genetics, Pan_troglodytes
Version 1.3.99
License Artistic-2.0
Depends BSgenome(>= 1.31.8), BSgenome.Ptroglodytes.UCSC.panTro3
Imports BSgenome, BSgenome.Ptroglodytes.UCSC.panTro3
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System Requirements
URL
Depends On Me
Imports Me
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Package Source BSgenome.Ptroglodytes.UCSC.panTro3.masked_1.3.99.tar.gz
Windows Binary BSgenome.Ptroglodytes.UCSC.panTro3.masked_1.3.99.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) BSgenome.Ptroglodytes.UCSC.panTro3.masked_1.3.99.tgz
Mac OS X 10.9 (Mavericks) BSgenome.Ptroglodytes.UCSC.panTro3.masked_1.3.99.tgz
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