Full masked genome sequences for Homo sapiens (UCSC version hg19)

Bioconductor version: Release (2.14)

Full genome sequences for Homo sapiens (Human) as provided by UCSC (hg19, Feb. 2009) 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>

To install this package, start R and enter:


Citation (from within R, enter citation("BSgenome.Hsapiens.UCSC.hg19.masked")):


PDF   Reference Manual


biocViews AnnotationData, BSgenome, Genetics, Homo_sapiens
Version 1.3.99
License Artistic-2.0
Depends BSgenome(>= 1.31.8), BSgenome.Hsapiens.UCSC.hg19
Imports BSgenome, BSgenome.Hsapiens.UCSC.hg19
System Requirements
Depends On Me
Imports Me
Suggests Me BSgenome, r3Cseq

Package Downloads

Package Source BSgenome.Hsapiens.UCSC.hg19.masked_1.3.99.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) BSgenome.Hsapiens.UCSC.hg19.masked_1.3.99.tgz
Mac OS X 10.9 (Mavericks) BSgenome.Hsapiens.UCSC.hg19.masked_1.3.99.tgz
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