Package: CGHcall 2.74.0

Mark van de Wiel

CGHcall: Calling aberrations for array CGH tumor profiles.

Calls aberrations for array CGH data using a six state mixture model as well as several biological concepts that are ignored by existing algorithms. Visualization of profiles is also provided.

Authors:Mark van de Wiel, Sjoerd Vosse

CGHcall_2.74.0.tar.gz
CGHcall_2.74.0.zip(r-4.7-any)CGHcall_2.74.0.zip(r-4.6-any)CGHcall_2.74.0.zip(r-4.5-any)
CGHcall_2.74.0.tgz(r-4.6-any)CGHcall_2.74.0.tgz(r-4.5-any)
CGHcall_2.74.0.tar.gz(r-4.7-any)CGHcall_2.74.0.tar.gz(r-4.6-any)
CGHcall_2.74.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
CGHcall/json (API)

# Install 'CGHcall' in R:

install.packages('CGHcall', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

Wilting - Cervical cancer arrayCGH data

On BioConductor:CGHcall-2.75.0(bioc 3.24)CGHcall-2.74.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

microarray preprocessing visualization

6.29 score 6 packages 54 scripts 802 downloads 37 mentions 6 exports 11 dependencies

Last updated from:b0ce5520c3 (on RELEASE_3_23). Checks:1 ERROR, 7 WARNING, 2 OK. Indexed: no.

Target	Result	Time
bioc-checks	ERROR	137
linux-devel-x86_64	WARNING	236
source / vignettes	OK	166
linux-release-x86_64	WARNING	175
macos-release-arm64	WARNING	76
macos-oldrel-arm64	WARNING	79
windows-devel	WARNING	80
windows-release	WARNING	88
windows-oldrel	WARNING	83
wasm-release	OK	108

Exports:CGHcall ExpandCGHcall normalize postsegnormalize preprocess segmentData

Dependencies:Biobase BiocGenerics CGHbase DNAcopy generics impute limma marray snow snowfall statmod

CGHcall

Overview | Example

Rendered fromCGHcall.Rnwusingutils::Sweave

Last update: 2013-11-01
Started: 2013-11-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Calling aberrations for array CGH tumor profiles.	CGHcall-package
Calling aberrations for array CGH tumor profiles.	CGHcall
Expands result fron CGHcall to CGHcall object.	ExpandCGHcall
Normalization and cellularity adjustment for arrayCGH data.	normalize
Post-segmentation normalization	postsegnormalize
Preprocess arrayCGH data	preprocess
Breakpoint detection for arrayCGH data.	segmentData
Cervical cancer arrayCGH data	Wilting