cancerGI

1.0.1

Analyses of Cancer Gene Interaction

0packages depend

2.6Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Audrey Q. FuFirst published 2016-04-012 releasesCRAN page ↗

Functions to perform the following analyses: i) inferring epistasis from RNAi double knockdown data; ii) identifying gene pairs of multiple mutation patterns; iii) assessing association between gene pairs and survival; and iv) calculating the smallworldness of a graph (e.g., a gene interaction network). Data and analyses are described in Wang, X., Fu, A. Q., McNerney, M. and White, K. P. (2014). Widespread genetic epistasis among breast cancer genes. Nature Communications. 5 4828. doi:10.1038/ncomms5828.

Install

R (CRAN)Ubuntu (r2u)

install.packages("cancerGI", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-cancergi

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 2.9 min · r-devel-linux-x86_64-fedora-clang

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-06-09
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
11 OK · 1 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 75%
Documented parameters: 100%
Return-value docs: 88%
References docs: 92%

Downloads

2.6K

CRAN downloads in the past year

Rank #14,390 · ~7/day · ~217/mo

Releases R versions

Daily download trend is not available in this view yet.

26230 days

74690 days

2.6K1 year

Compare downloads with other packages →

Also on106 r2u

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (5)

systemfit qvaluesurvivalreshape2 igraph

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (2)

Audrey Qiuyan Fu

no longer listed · 1.0.0 to 1.0.1

Xiaoyue Wang

no longer listed · 1.0.0 to 1.0.1

Package Timeline

2 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.0.1Latest
2023-09-07 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
1.0.0
2016-04-01
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2016-04-01
Total releases: 2 / 10 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 2.10
Bundled data: 533 KB / 4 files
Download size: 548 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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