acnr: Annotated Copy-Number Regions

This data package contains SNP array data from different types of copy-number regions. These regions were identified manually by the authors of the package and may be used to generate realistic data sets with known truth.

AuthorMorgane Pierre-Jean and Pierre Neuvial
Date of publication2016-05-09 14:00:00
MaintainerMorgane Pierre-Jean <morgane.pierrejean@genopole.cnrs.fr>
LicenseLGPL (>= 2.1)
Version0.2.5

View on R-Forge

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/loadCnRegionData.R
build
build/vignette.rds
inst
inst/doc
inst/doc/acnr.R
inst/doc/acnr.Rnw
inst/doc/acnr.pdf
inst/extdata
inst/extdata/GSE11976
inst/extdata/GSE11976/HumanCNV370v1
inst/extdata/GSE11976/HumanCNV370v1/CRL2324,BAF,0,cnRegions.rds
inst/extdata/GSE11976/HumanCNV370v1/CRL2324,BAF,100,cnRegions.rds
inst/extdata/GSE11976/HumanCNV370v1/CRL2324,BAF,34,cnRegions.rds
inst/extdata/GSE11976/HumanCNV370v1/CRL2324,BAF,50,cnRegions.rds
inst/extdata/GSE11976/HumanCNV370v1/CRL2324,BAF,79,cnRegions.rds
inst/extdata/GSE13372
inst/extdata/GSE13372/GenomeWideSNP_6
inst/extdata/GSE13372/GenomeWideSNP_6/GSE13372,ASCRMAv2,HCC1143_GLEYSvsHCC1143BL_GLEYS,0,cnRegions.rds
inst/extdata/GSE13372/GenomeWideSNP_6/GSE13372,ASCRMAv2,HCC1143_GLEYSvsHCC1143BL_GLEYS,100,cnRegions.rds
inst/extdata/GSE29172
inst/extdata/GSE29172/GenomeWideSNP_6
inst/extdata/GSE29172/GenomeWideSNP_6/GSE29172,ASCRMAv2,H1395vsBL1395,100,cnRegions.rds
inst/extdata/GSE29172/GenomeWideSNP_6/GSE29172,ASCRMAv2,H1395vsBL1395,30,cnRegions.rds
inst/extdata/GSE29172/GenomeWideSNP_6/GSE29172,ASCRMAv2,H1395vsBL1395,50,cnRegions.rds
inst/extdata/GSE29172/GenomeWideSNP_6/GSE29172,ASCRMAv2,H1395vsBL1395,70,cnRegions.rds
inst/preprocessing
inst/preprocessing/GSE11976
inst/preprocessing/GSE11976/00.PrepareData.R inst/preprocessing/GSE11976/01.defineCopyNumberSegments.R inst/preprocessing/GSE11976/02.exportRegionData.R inst/preprocessing/GSE11976/03.mergeCnRegionData.R inst/preprocessing/GSE11976/03.plotRegions.R
inst/preprocessing/GSE13372
inst/preprocessing/GSE13372/00.install.R inst/preprocessing/GSE13372/01.checkAnnotationData.R inst/preprocessing/GSE13372/01.downloadAnnotationData.R inst/preprocessing/GSE13372/02.downloadRawData.R inst/preprocessing/GSE13372/03.doASCRMAv2.R inst/preprocessing/GSE13372/04.writeWholeGenomeData.R inst/preprocessing/GSE13372/05.defineCopyNumberSegments.R inst/preprocessing/GSE13372/06.exportRegionData.R inst/preprocessing/GSE13372/07.mergeCnRegionData.R
inst/preprocessing/GSE29172
inst/preprocessing/GSE29172/00.install.R inst/preprocessing/GSE29172/01.checkAnnotationData.R inst/preprocessing/GSE29172/02.doASCRMAv2.R inst/preprocessing/GSE29172/03.writeWholeGenomeData.R inst/preprocessing/GSE29172/04.plotTracks.R inst/preprocessing/GSE29172/05.defineCopyNumberSegments.R inst/preprocessing/GSE29172/06.plotCopyNumberSegments.R inst/preprocessing/GSE29172/07.exportRegionData.R inst/preprocessing/GSE29172/08.mergeCnRegionData.R inst/preprocessing/GSE29172/09.LightCnRegionData.R
man
man/acnr-package.Rd man/loadCnRegionData.Rd
vignettes
vignettes/acnr.Rnw

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

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.