SubtypeDrug

0.1.9

Prioritization of Candidate Cancer Subtype Specific Drugs

0packages depend

2.7Kdownloads / year

–test coverage

9/13checks pass

Overview

About

Maintained by Junwei HanFirst published 2020-05-1610 releasesCRAN page ↗GitHub ↗

A systematic biology tool was developed to prioritize cancer subtype-specific drugs by integrating genetic perturbation, drug action, biological pathway, and cancer subtype. The capabilities of this tool include inferring patient-specific subpathway activity profiles in the context of gene expression profiles with subtype labels, calculating differentially expressed subpathways based on cultured human cells treated with drugs in the 'cMap' (connectivity map) database, prioritizing cancer subtype specific drugs according to drug-disease reverse association score based on subpathway, and visualization of results (Castelo (2013) doi:10.1186/1471-2105-14-7; Han et al (2019) doi:10.1093/bioinformatics/btz894; Lamb and Justin (2006) doi:10.1126/science.1132939). Please cite using doi:10.1093/bioinformatics/btab011.

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("SubtypeDrug", 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("hanjunwei-lab/SubtypeDrug")

Development version from hanjunwei-lab/SubtypeDrug. Installs pak first if it is not already available.

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-subtypedrug

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

2ERROR2NOTE9OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc
ERROR r-oldrel-macos-x86_64
ERROR r-release-linux-x86_64

Slowest check: 14.6 min · r-devel-linux-x86_64-fedora-clang

Check history

ERROR2026-03-10
8 OK · 1 NOTE · 0 WARNING · 5 ERROR · 0 FAILURE

Documentation

Documentation signals are not tracked yet for this package.

Downloads

2.7K

CRAN downloads in the past year

Rank #15,899 · ~7/day · ~227/mo

SubtypeDrug Releases R versions

Daily download trend is not available in this view yet.

21230 days

69290 days

2.7K1 year

Compare downloads with other packages →

Also on178 r2u

Repository

GitHub ↗ hanjunwei-lab/subtypedrug

2Stars

2Forks

1Open issues

0Open PRs

0Releases

9Commits

1Contributors

9 commits · Last activity 2024-01-11

Repository practices

Upstream repositoryBeta

Checks run against github.com/hanjunwei-lab/subtypedrug on 2026-07-19.

No development-tooling practices detected in the upstream repository.

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

10 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (11)

BiocGenerics GSVAgrDevicesgraphicsigraphparallelpheatmap rveststatsxml2 ChemmineR

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown testthat

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 (3)

Junwei Han

no longer listed · 0.1.0 to 0.1.9

Xudong Han

no longer listed · 0.1.0 to 0.1.9

Chonghui Liu

no longer listed · 0.1.0 to 0.1.9

Package Timeline

10 releases. 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
0.1.9Latest
2024-04-17 · current release · diff ↗
0.1.8
2024-03-18 · diff ↗
0.1.7
2024-01-21 · diff ↗
0.1.6
2024-01-10 · 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
0.1.5
2021-05-17 · diff ↗
0.1.4
2021-01-22 · diff ↗
0.1.3
2020-11-24 · diff ↗
0.1.2
2020-09-24 · diff ↗
0.1.1
2020-06-26 · diff ↗
0.1.0
2020-05-16

Show 1 earlier events

R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2020-05-16
Total releases: 10 / 6 yrs
License: GPL (>= 2) OSI
Download size: 3.1 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Report a problem with this page →