WhopGenome: High-Speed Processing of VCF, FASTA and Alignment Data

Provides very fast access to whole genome, population scale variation data from VCF files and sequence data from FASTA-formatted files. It also reads in alignments from FASTA, Phylip, MAF and other file formats. Provides easy-to-use interfaces to genome annotation from UCSC and Bioconductor and gene ontology data from AmiGO and is capable to read, modify and write PLINK .PED-format pedigree files.

Version: 0.9.2
Depends: R (≥ 1.8.0)
Suggests: RMySQL, DBI, AnnotationDbi
Published: 2015-02-20
Author: Ulrich Wittelsbuerger [aut, cre], Heng Li [ctb], Bob Handsaker [ctb]
Maintainer: Ulrich Wittelsbuerger <ulrich.wittelsbuerger at uni-duesseldorf.de>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
Copyright: inst/COPYRIGHTS
WhopGenome copyright details
NeedsCompilation: yes
SystemRequirements: zlib headers and library.
Citation: WhopGenome citation info
CRAN checks: WhopGenome results

Downloads:

Reference manual: WhopGenome.pdf
Package source: WhopGenome_0.9.2.tar.gz
Windows binaries: r-devel: WhopGenome_0.9.2.zip, r-release: WhopGenome_0.9.2.zip, r-oldrel: WhopGenome_0.9.2.zip
OS X Snow Leopard binaries: r-release: WhopGenome_0.9.2.tgz, r-oldrel: WhopGenome_0.9.2.tgz
OS X Mavericks binaries: r-release: WhopGenome_0.9.2.tgz
Old sources: WhopGenome archive

Reverse dependencies:

Reverse suggests: PopGenome