derfinderPlot

Package: derfinderPlot
Type: Package
Title: Plotting functions for derfinder
Version: 1.6.3
Date: 2016-05-12
Authors@R: c(person("Leonardo", "Collado-Torres", role = c("aut", "cre"), email
= "lcollado@jhu.edu"), person(c("Andrew", "E."), "Jaffe", role = "aut",
email = "andrew.jaffe@libd.org"), person(c("Jeffrey", "T."), "Leek",
role = c("aut", "ths"), email = "jtleek@gmail.com"))
Depends: R (>= 3.2)
Imports: derfinder (>= 1.1.0), GenomeInfoDb (>= 1.3.3),
GenomicFeatures, GenomicRanges (>= 1.17.40), ggbio (>=
1.13.13), ggplot2, IRanges (>= 1.99.28), limma, plyr,
RColorBrewer, reshape2, S4Vectors (>= 0.9.38), scales
Suggests: biovizBase, bumphunter (>= 1.7.6), derfinderData (>= 0.99.0),
devtools (>= 1.6), knitcitations (>= 1.0.1), knitr (>= 1.6),
BiocStyle, org.Hs.eg.db, rmarkdown (>= 0.3.3), testthat,
TxDb.Hsapiens.UCSC.hg19.knownGene
VignetteBuilder: knitr
Description: This package provides plotting functions for results from the
derfinder package.
License: Artistic-2.0
LazyData: false
URL: https://github.com/leekgroup/derfinderPlot
BugReports: https://github.com/leekgroup/derfinderPlot/issues
biocViews: DifferentialExpression, Sequencing, RNASeq, Software,
Visualization
NeedsCompilation: no
Packaged: 2016-05-16 04:55:44 UTC; biocbuild
Author: Leonardo Collado-Torres [aut, cre],
Andrew E. Jaffe [aut],
Jeffrey T. Leek [aut, ths]
Maintainer: Leonardo Collado-Torres <lcollado@jhu.edu>

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'derfinderPlot' ...
** R
** inst
** preparing package for lazy loading
Warning: replacing previous import 'ggplot2::Position' by 'BiocGenerics::Position' when loading 'ggbio'
** help
*** installing help indices
  converting help for package 'derfinderPlot'
    finding HTML links ... done
    derfinderPlot-defunct                   html  
    derfinderPlot-package                   html  
    plotCluster                             html  
Rd warning: /tmp/RtmpRE7yho/R.INSTALL1c83555c2fff/derfinderPlot/man/plotCluster.Rd:38: missing file link 'plotIdeogram'
Rd warning: /tmp/RtmpRE7yho/R.INSTALL1c83555c2fff/derfinderPlot/man/plotCluster.Rd:89: missing file link 'plotIdeogram'
    plotOverview                            html  
    plotRegionCoverage                      html  
Rd warning: /tmp/RtmpRE7yho/R.INSTALL1c83555c2fff/derfinderPlot/man/plotRegionCoverage.Rd:54: missing file link 'countOverlaps'
Rd warning: /tmp/RtmpRE7yho/R.INSTALL1c83555c2fff/derfinderPlot/man/plotRegionCoverage.Rd:54: missing file link 'findOverlaps'
Rd warning: /tmp/RtmpRE7yho/R.INSTALL1c83555c2fff/derfinderPlot/man/plotRegionCoverage.Rd:28: missing file link 'TxDb'
Rd warning: /tmp/RtmpRE7yho/R.INSTALL1c83555c2fff/derfinderPlot/man/plotRegionCoverage.Rd:34: missing file link 'brewer.pal'
    vennRegions                             html  
Rd warning: /tmp/RtmpRE7yho/R.INSTALL1c83555c2fff/derfinderPlot/man/vennRegions.Rd:17: missing file link 'vennDiagram'
Rd warning: /tmp/RtmpRE7yho/R.INSTALL1c83555c2fff/derfinderPlot/man/vennRegions.Rd:51: missing file link 'vennCounts'
Rd warning: /tmp/RtmpRE7yho/R.INSTALL1c83555c2fff/derfinderPlot/man/vennRegions.Rd:52: missing file link 'vennDiagram'
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import 'ggplot2::Position' by 'BiocGenerics::Position' when loading 'ggbio'
* DONE (derfinderPlot)
Making 'packages.html' ... done