Package: CVE
Title: Cancer Variant Explorer
Version: 1.0.0
Authors@R: person("Andreas", "Mock", email = "mock.science@gmail.com",
        role = c("aut", "cre"))
Author: Andreas Mock [aut, cre]
Maintainer: Andreas Mock <mock.science@gmail.com>
Description: Shiny app for interactive variant prioritisation in
        precision cancer medicine. The input file for CVE is the output
        file of the recently released Oncotator Variant Annotation tool
        summarising variant-centric information from 14 different
        publicly available resources relevant for cancer researches.
        Interactive priortisation in CVE is based on known germline and
        cancer variants, DNA repair genes and functional prediction
        scores. An optional feature of CVE is the exploration of the
        tumour-specific pathway context that is facilitated using
        co-expression modules generated from publicly available
        transcriptome data. Finally druggability of prioritised
        variants is assessed using the Drug Gene Interaction Database
        (DGIdb).
Depends: R (>= 3.3), shiny, ConsensusClusterPlus, RColorBrewer, gplots,
        plyr, ggplot2, jsonlite, ape, WGCNA
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 5.0.1
Suggests: knitr, rmarkdown, testthat, BiocStyle
VignetteBuilder: knitr
biocViews: BiomedicalInformatics
NeedsCompilation: no
Packaged: 2016-10-18 00:38:05 UTC; biocbuild
Built: R 3.3.1; ; 2016-10-18 01:54:19 UTC; windows
