diffdriver

0.1.7

Identify Differential Selection

0packages depend

217downloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Siming ZhaoFirst published 2026-06-261 releasesCRAN page ↗GitHub ↗

Tests for context-dependent selection on cancer driver genes using somatic mutation data. The package implements the DiffDriver statistical framework to assess whether the strength of positive selection on mutations in a driver gene is associated with tumor- or individual-level context variables, such as clinical traits, genomic features, or immune microenvironment subtypes. DiffDriver estimates individual- and position-specific background mutation rates, models selection as a deviation from the background rate using functional annotations, and tests context effects through a latent-variable logistic model. It provides utilities for preparing mutation and annotation data, fitting differential-selection models, running gene-level association tests, summarizing candidate genes, and visualizing mutation patterns. The method is described in Zhou et al. (2026) "Detecting context-dependent selection on cancer driver genes with DiffDriver" doi:10.64898/2026.04.06.716771.

Install

R (CRAN)pak (dev)Fedora (COPR)openSUSE (OBS)

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

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

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("szhaolab/diffdriver")

Development version from szhaolab/diffdriver. Installs pak first if it is not already available.

# 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-diffdriver

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-diffdriver

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

Health

CRAN checks

13OK

Slowest check: 2.4 min · r-devel-linux-x86_64-fedora-gcc

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Yes

Vignettes

Yes

README

Dependencies · direct

Check history

OK2026-06-27
7 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Downloads

217

CRAN downloads in the past year

Rank #24,224 · ~1/day · ~18/mo

Releases R versions

Daily download trend is not available in this view yet.

21730 days

21790 days

2171 year

Compare downloads with other packages →

Also on1 autocran

Repository

GitHub ↗ szhaolab/diffdriver

0Stars

0Forks

0Open issues

0Open PRs

0Releases

Last activity 2026-07-10

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (6)

Matrixstatsdata.table brglm fastTopics SQUAREM

LinkingTo (0)

none

Suggests (4)

knitr rmarkdown logging testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 1,480 (66%)Rd 656 (29%)Vignettes 99 (4%)

Code characteristics

Cyclomatic complexity: 1.0 median / 11 max
Documented parameters: 90%

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

47 10 exported

Complexity

2.3 avg / 11 max

Call network

47 nodes / 53 edges

Test coverage has not been measured for this package yet; nodes fall back to a neutral fill.

Call graph

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Lowest coverage

Per-function coverage is not measured for this package yet.

People & History

People (3)

Maintainer (1)

Siming Zhao

Author, Maintainer

Authors (3)

Siming Zhao

Author, Maintainer

Qirui Zhang

Author

Jie Zhou

Author

Release timeline

1 release. R releases are shown for context.

0.1.7Latest
2026-06-26 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-06-26
Total releases: 1 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5.0
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet