WhopGenome's 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: | 0.9.0 |
| Depends: | R (≥ 1.8.0) |
| Suggests: | RMySQL, DBI, AnnotationDbi |
| Published: | 2014-09-12 |
| Author: | Ulrich Wittelsbuerger |
| Maintainer: | Ulrich Wittelsbuerger <ulrich.wittelsbuerger at uni-duesseldorf.de> |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| Copyright: | This package uses zlib, Tabix, bgzf and faidx. Zlib by Jean-loup Gally <jloup@gzip.org> and Mark Adler <madler@alumni.caltech.edu>, uses the Zlib licence. Tabix and FaIdx by Heng Li <lh3@live.co.uk> use the MIT licence. BGZF as by Bob Handsaker and modified by Heng Li uses the MIT licence. Anything else was written entirely by Ulrich Wittelsbuerger. All third-party code has been slightly modified to conform to R package development requirements such as removal or replacement of printf, fprintf on stderr and functions that would terminate a running R session by R-supplied equivalents as well as modifications that eliminate most compiler warnings. |
| NeedsCompilation: | yes |
| Materials: | NEWS |
| CRAN checks: | WhopGenome results |
| Reference manual: | WhopGenome.pdf |
| Vignettes: |
An introduction to WhopGenome |
| Package source: | WhopGenome_0.9.0.tar.gz |
| Windows binaries: | r-devel: WhopGenome_0.9.0.zip, r-release: WhopGenome_0.9.0.zip, r-oldrel: WhopGenome_0.9.0.zip |
| OS X Snow Leopard binaries: | r-release: WhopGenome_0.9.0.tgz, r-oldrel: WhopGenome_0.9.0.tgz |
| OS X Mavericks binaries: | r-release: WhopGenome_0.9.0.tgz |
| Old sources: | WhopGenome archive |
| Reverse suggests: | PopGenome |