conumee: Enhanced copy-number variation analysis using Illumina DNA methylation arrays

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This package contains a set of processing and plotting methods for performing copy-number variation (CNV) analysis using Illumina 450k or EPIC methylation arrays.

Author
Volker Hovestadt, Marc Zapatka
Date of publication
None
Maintainer
Volker Hovestadt <conumee@hovestadt.bio>
License
GPL (>= 2)
Version
1.8.0

View on Bioconductor

Man pages

CNV.analysis-class
CNV.analysis class
CNV.anno-class
CNV.anno class
CNV.bin
CNV.bin
CNV.check
CNV.check
CNV.create_anno
CNV.create_anno
CNV.create_bins
CNV.create_bins
CNV.data-class
CNV.data class
CNV.detail
CNV.detail
CNV.detailplot
CNV.detailplot
CNV.detailplot_wrap
CNV.detailplot_wrap
CNV.fit
CNV.fit
CNV.genomeplot
CNV.genomeplot
CNV.load
CNV.load
CNV.merge_bins
CNV.merge_bins
CNV.segment
CNV.segment
CNV.write
CNV.write
detail_regions
detail_regions
exclude_regions
exclude_regions
read.450k.url
read.450k.url
tbl_ucsc
tbl_ucsc
tcgaBRCA.sentrix2name
tcgaBRCA.sentrix2name

Files in this package

conumee/.BBSoptions
conumee/DESCRIPTION
conumee/NAMESPACE
conumee/R
conumee/R/annotation.R
conumee/R/classes.R
conumee/R/data.R
conumee/R/load.R
conumee/R/output.R
conumee/R/process.R
conumee/R/sysdata.rda
conumee/README.md
conumee/TODO
conumee/build
conumee/build/vignette.rds
conumee/data
conumee/data/detail_regions.rda
conumee/data/exclude_regions.rda
conumee/data/tcgaBRCA.sentrix2name.rda
conumee/inst
conumee/inst/CITATION
conumee/inst/NEWS
conumee/inst/doc
conumee/inst/doc/conumee.R
conumee/inst/doc/conumee.Rmd
conumee/inst/doc/conumee.html
conumee/inst/extdata
conumee/inst/extdata/detail_regions.bed
conumee/inst/extdata/exclude_regions.bed
conumee/man
conumee/man/CNV.analysis-class.Rd
conumee/man/CNV.anno-class.Rd
conumee/man/CNV.bin.Rd
conumee/man/CNV.check.Rd
conumee/man/CNV.create_anno.Rd
conumee/man/CNV.create_bins.Rd
conumee/man/CNV.data-class.Rd
conumee/man/CNV.detail.Rd
conumee/man/CNV.detailplot.Rd
conumee/man/CNV.detailplot_wrap.Rd
conumee/man/CNV.fit.Rd
conumee/man/CNV.genomeplot.Rd
conumee/man/CNV.load.Rd
conumee/man/CNV.merge_bins.Rd
conumee/man/CNV.segment.Rd
conumee/man/CNV.write.Rd
conumee/man/detail_regions.Rd
conumee/man/exclude_regions.Rd
conumee/man/read.450k.url.Rd
conumee/man/tbl_ucsc.Rd
conumee/man/tcgaBRCA.sentrix2name.Rd
conumee/vignettes
conumee/vignettes/TCGA-AR-A1AU_figure.vh20150223.png
conumee/vignettes/biomed-central.csl
conumee/vignettes/conumee.Rmd
conumee/vignettes/conumee.bib