R Observatory: Metrics for MultiSEp version 4.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MultiSEp

4.1.3Package record

Predict Synthetic Lethality and Other Gene Dependency Relationships from Multiomics Data

0packages depend

579downloads / year

59.2%test coverage

13/13flavors OK

Overview

About

Maintained by Ian OvertonCRAN page ↗

Predicts gene dependency relationships (GDRs) from functional genomics data. Regularised Gaussian mixture modelling may be applied for unsupervised clustering in addition to other data partitioning strategies. GDR analysis tools include discovery of synthetic lethal relationships and predicting population coverage for candidate drug targets from cancer patient mutational profiles. Functionality for visualisation is also available. 'MultiSEp' is applicable to data from a variety of sources including clinical cohorts, organoids and cell lines.

Install

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

install.packages("MultiSEp", 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-multisep

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-MultiSEp

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-MultiSEp

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 9.2 min · r-oldrel-windows-x86_64

Status changes

OK13 OKNow
OK5 OK2026-08-27

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 4.1.3

READMENoVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 35
Examples that run: 91%32 run in a plain check · 3 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 54%

Vignettes (1)

Introduction to MultiSEp

How these are measured

Downloads

579

CRAN downloads in the past year

Rank #22,572 · ~2/day · ~48/mo

Releases R versions

Daily download trend is not available in this view yet.

27830 days

57990 days

5791 year

Compare downloads with other packages →

Also on9 r2u2 autocran

How downloads are counted

Dependencies

Declared dependencies

15 external dependencies (excludes base and recommended)

Installing MultiSEp adds 47 packages (22 with compiled code, 40 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, igraph 4.8 MB.

Depends (1)

R >= 3.5.0

Imports (11)

pracma pbapply pbmcapply reshape2 ggplot2 gtools testthat igraphgridpatchwork scales

LinkingTo (0)

none

Suggests (5)

rmarkdown kableExtra magrittr knitr dplyr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (3)

Ian Overton

Author, Maintainer since 4.1.3 (2026)

Adeline McKie

Author

Mark Wappett

Author

Releases (1)

4.1.3Latest
record
2026-08-27 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-08-27
Total releases: 1 / 1 yrs
License: LGPL-2.1 OSI
Minimum R: ≥ 3.5.0
Bundled data: 1.5 MB / 14 files
Download size: 3.2 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("MultiSEp")

Format

Overton, I., McKie, A., & Wappett, M. (2026). MultiSEp: Predict Synthetic Lethality and Other Gene Dependency Relationships from Multiomics Data (Version 4.1.3) [Computer software]. https://doi.org/10.32614/CRAN.package.MultiSEp

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for MultiSEp version 4.1.3 [Data set]. HJJB, LLC. Data release v2026-10-20. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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