Package: copa 1.81.0

James W. MacDonald

copa: Functions to perform cancer outlier profile analysis.

COPA is a method to find genes that undergo recurrent fusion in a given cancer type by finding pairs of genes that have mutually exclusive outlier profiles.

Authors:James W. MacDonald

copa_1.81.0.tar.gz
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manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
copa/json (API)

# Install 'copa' in R:

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

On BioConductor:copa-1.81.0(bioc 3.24)copa-1.80.0(bioc 3.23)

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

onechannel twochannel differentialexpression visualization

3.60 score 4 scripts 2 mentions 6 exports 3 dependencies

Last updated from:ed19c79340. Checks:1 ERROR, 11 NOTE, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	131
linux-devel-arm64	NOTE	127
linux-devel-x86_64	NOTE	177
source / vignettes	OK	159
linux-release-arm64	NOTE	131
linux-release-x86_64	NOTE	160
macos-release-arm64	NOTE	92
macos-release-x86_64	NOTE	184
macos-oldrel-arm64	NOTE	68
macos-oldrel-x86_64	NOTE	155
windows-devel	NOTE	75
windows-release	NOTE	85
windows-oldrel	NOTE	73
wasm-release	OK	81

Exports:copa copaPerm plotCopa scatterPlotCopa summaryCopa tableCopa

Dependencies:Biobase BiocGenerics generics

copa Overview

Overview | Introduction | Using copa

Rendered fromcopa.Rnwusingutils::Sweave

Last update: 2013-10-21
Started: 2013-10-21

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
copa - A package to compute 'Cancer Outlier Profile Analysis'	copa-package
Calculate COPA Scores from a Set of Microarrays	copa
Measure Significance of COPA by Permutation	copaPerm
Plot Gene Pairs fom the Results of Running copa	plotCopa
Create scatterplots of interesting gene pairs	scatterPlotCopa
Create Summary Showing Top Gene Pairs	summaryCopa
Summarize copa results	tableCopa