| e92c53c4 | Package: gmapR |
| c83be0b8 | Maintainer: Michael Lawrence <lawrence.michael@gene.com> |
| 0d0203aa | License: Artistic-2.0 |
| 81809a5a | Title: An R interface to the GMAP/GSNAP/GSTRUCT suite |
| 0d0203aa | Type: Package |
| b2352850 | Author: Cory Barr, Thomas Wu, Michael Lawrence |
| e92c53c4 | Description: GSNAP and GMAP are a pair of tools to align short-read |
| aa75d4f7 | data written by Tom Wu. This package provides convenience
methods to work with GMAP and GSNAP from within R. In addition,
it provides methods to tally alignment results on a
per-nucleotide basis using the bam_tally tool.
|
| 8418591e | Version: 1.13.1 |
| d5ed1249 | Depends: R (>= 2.15.0), methods, GenomeInfoDb (>= 1.1.3),
GenomicRanges (>= 1.17.12)
Imports: S4Vectors, IRanges, Rsamtools (>= 1.17.8), rtracklayer (>= 1.25.5),
GenomicFeatures (>= 1.17.13), Biostrings, VariantAnnotation (>= 1.11.4),
tools, Biobase, BSgenome, GenomicAlignments (>= 1.1.9), BiocParallel
|
| 6747ae05 | Suggests: RUnit, BSgenome.Dmelanogaster.UCSC.dm3, |
| aa75d4f7 | BSgenome.Scerevisiae.UCSC.sacCer3, org.Hs.eg.db,
TxDb.Hsapiens.UCSC.hg19.knownGene, BSgenome.Hsapiens.UCSC.hg19,
LungCancerLines
Collate: GmapBamReader-class.R GmapGenomeDirectory-class.R
GmapGenome-class.R GmapSnpDirectory-class.R GmapSnps-class.R
GsnapParam-class.R GsnapOutput-class.R atoiindex-command.R
BamTallyParam-class.R bam_tally-command.R cmetindex-command.R
get-genome-command.R gmap-command.R gmap_build-command.R
gsnap-command.R iit-format.R iit_store-command.R info.R
snpindex-command.R system.R test_gmapR_package.R
makeGmapGenomePackage.R TP53Genome.R utils.R asSystemCall.R
biocViews: Alignment
|