CJIVE

0.1.0

Canonical Joint and Individual Variation Explained (CJIVE)

0packages depend

2.7Kdownloads / year

2.3%test coverage

11/13checks pass

Overview

About

Maintained by Raphiel MurdenFirst published 2023-01-201 releasesCRAN page ↗

Joint and Individual Variation Explained (JIVE) is a method for decomposing multiple datasets obtained on the same subjects into shared structure, structure unique to each dataset, and noise. The two most common implementations are R.JIVE, an iterative approach, and AJIVE, which uses principal angle analysis. JIVE estimates subspaces but interpreting these subspaces can be challenging with AJIVE or R.JIVE. We expand upon insights into AJIVE as a canonical correlation analysis (CCA) of principal component scores. This reformulation, which we call CJIVE, 1) provides an ordering of joint components by the degree of correlation between corresponding canonical variables; 2) uses a computationally efficient permutation test for the number of joint components, which provides a p-value for each component; and 3) can be used to predict subject scores for out-of-sample observations. Please cite the following article when utilizing this package: Murden, R., Zhang, Z., Guo, Y., & Risk, B. (2022) doi:10.3389/fnins.2022.969510.

Install

R (CRAN)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("CJIVE", 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-cjive

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

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-CJIVE

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-CJIVE

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

2NOTE11OK

Failing flavors

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

Slowest check: 1.2 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.02

2.3%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 154 wordsVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

2.7K

CRAN downloads in the past year

Rank #17,128 · ~7/day · ~223/mo

Releases R versions

Daily download trend is not available in this view yet.

21730 days

67890 days

2.7K1 year

Compare downloads with other packages →

Also on100 r2u16 autocran

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (6)

rootSolve ggplot2 reshape2 fields gplots psych

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 1,296 (62%)Rd 800 (38%)

Code characteristics

Cyclomatic complexity: 1.0 median / 12 max
Test cases: 3 / 0.02 per code line

Test coverage

Line coverage

Expression

2.4%

Tests / Examples

2.3% / 37% ex

Functions

22 22 exported

Complexity

3.1 avg / 12 max

Call network

22 nodes / 4 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

22 functions

Function	Cyclo	Coverage
AdjSigVarExp exp	1	0%
ConvSims_gg exp	5	0%
GenerateToyData exp	9	0%
GetSimResults_Dir exp	3	0%
Melt.Sim.Cors exp	1	0%
cc.jive exp	8	0%

People & History

People (2)

Maintainer (1)

Raphiel Murden

Author, Maintainer

Authors (2)

Raphiel Murden

Author, Maintainer

Benjamin Risk

Author

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2023-01-20
Total releases: 1 / 3 yrs
License: MIT + file LICENSE OSI
Download size: 25 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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