biomvRCNS: Copy Number study and Segmentation for multivariate biological data

In this package, a Hidden Semi Markov Model (HSMM) and one homogeneous segmentation model are designed and implemented for segmentation genomic data, with the aim of assisting in transcripts detection using high throughput technology like RNA-seq or tiling array, and copy number analysis using aCGH or sequencing.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("biomvRCNS")
AuthorYang Du
Bioconductor views CopyNumberVariation Genetics Microarray Sequencing Visualization aCGH
Date of publicationNone
MaintainerYang Du <tooyoung@gmail.com>
LicenseGPL (>= 2)
Version1.14.0

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/biomvRhsmm.R R/biomvRplot.R R/biomvRseg.R R/defClasses.R R/misc.R
build
build/vignette.rds
data
data/coriell.rda
data/encodeTP53.rda
data/variosm.rda
inst
inst/CITATION
inst/doc
inst/doc/biomvRCNS.R
inst/doc/biomvRCNS.Rnw
inst/doc/biomvRCNS.pdf
inst/extdata
inst/extdata/encodeFiles.txt
inst/extdata/gmodTP53.gff
man
man/biomvRCNS-class.Rd man/biomvRGviz.Rd man/biomvRhsmm.Rd man/biomvRmgmr.Rd man/biomvRseg.Rd man/coriell.Rd man/encodeTP53.Rd man/hsmmRun.Rd man/maxGapminRun.Rd man/regionSegAlphaNB.Rd man/regionSegCost.Rd man/simSegData.Rd man/sojournAnno.Rd man/splitFarNeighbour.Rd man/variosm.Rd
src
src/biomvRCNS.c
vignettes
vignettes/biomvRCNS.Rnw
vignettes/biomvRCNS.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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