This package was removed from CRAN on 2024-04-12. Its history is shown below.

Reason: issues were not corrected despite reminders

Details below reflect version 1.0-24, its last release before removal.

IsoGene

1.0-24

Order-Restricted Inference for Microarray Experiments

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Rudradev Sengupta12 releasesCRAN page ↗

Offers framework for testing for monotonic relationship between gene expression and doses in a microarray experiment. Several testing procedures including the global likelihood-ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus (1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007) are used to test for the monotonic trend in gene expression with respect to doses. BH (Benjamini and Hochberg 1995) and BY (Benjamini and Yekutieli 2004) FDR controlling procedures are applied to adjust the raw p-values obtained from the permutations.

Install

R (source archive)Ubuntu (r2u)

url <- "https://cran.r-project.org/src/contrib/Archive/IsoGene/IsoGene_1.0-24.tar.gz"
pkgFile <- "IsoGene_1.0-24.tar.gz"
download.file(url, pkgFile)
install.packages(pkgFile, type = "source", repos = NULL)

This package is no longer on CRAN, so install.packages() cannot fetch it by name. This downloads the last archived source (1.0-24) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

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-isogene

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

CRAN check results are not tracked yet.

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 81%
Documented parameters: 96%
Return-value docs: 100%
References docs: 100%

Downloads

Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on65 r2u448 bioconda25 c2d4u

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (2)

R >= 2.10Iso

Imports (5)

xtable Biobase affy fftcltk

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (4)

Other (4)

Dan Lin

Contributor · added in 1.0-23

Setia Pramana

Contributor · added in 1.0-23

Tobias Verbeke

Contributor · added in 1.0-23

Ziv Shkedy

Contributor · added in 1.0-23

Listed in earlier versions (1)

Lin et al.

no longer listed · 1.0-13 to 1.0-22

Package Timeline

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

R
R 4.4.0 released · 2024-04-24
archivedRemoved from CRAN
2024-04-12
issues were not corrected despite reminders
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
1.0-24
2015-07-15 · diff ↗
R
R 3.2.0 released · 2015-04-16
1.0-23
2014-12-18 · diff ↗
R
R 3.1.0 released · 2014-04-10
1.0-22
2013-10-29 · diff ↗
R
R 3.0.0 released · 2013-04-03

Show 18 earlier events

1.0-21
2013-03-11 · diff ↗
R
R 2.15.0 released · 2012-03-30
1.0-20
2012-03-05 · diff ↗
1.0-19
2011-11-14 · diff ↗
R
R 2.14.0 released · 2011-10-31
R
R 2.13.0 released · 2011-04-13
R
R 2.12.0 released · 2010-10-15
R
R 2.11.0 released · 2010-04-22
R
R 2.10.0 released · 2009-10-26
1.0-18
2009-08-21 · diff ↗
1.0-17
2009-08-21 · diff ↗
1.0-16
2009-08-21 · diff ↗
1.0-15
2009-08-21 · diff ↗
R
R 2.9.0 released · 2009-04-17
R
R 2.8.0 released · 2008-10-20
1.0-14
2008-09-09 · diff ↗
1.0-13
2008-09-09
R
R 2.7.0 released · 2008-04-22

Package metadata

Total releases: 12
License: GPL-3 OSI
Minimum R: ≥ 2.10
Bundled data: 234 KB / 2 files
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

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