CancerGram

1.0.0

Prediction of Anticancer Peptides

0packages depend

3.1Kdownloads / year

4.4%test coverage

11/13checks pass

Overview

About

Maintained by Michal BurdukiewiczFirst published 2020-11-191 releasesCRAN page ↗GitHub ↗

Predicts anticancer peptides using random forests trained on the n-gram encoded peptides. The implemented algorithm can be accessed from both the command line and shiny-based GUI. The CancerGram model is too large for CRAN and it has to be downloaded separately from the repository: https://github.com/BioGenies/CancerGramModel. For more information see: Burdukiewicz et al. (2020) doi:10.3390/pharmaceutics12111045.

Install

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

install.packages("CancerGram", 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("BioGenies/CancerGram")

Development version from BioGenies/CancerGram. 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-cancergram

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-CancerGram

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-CancerGram

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: 2.9 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.01

4.4%

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 · 310 wordsVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 75%
References docs: 14%

Downloads

3.1K

CRAN downloads in the past year

Rank #12,866 · ~8/day · ~254/mo

Releases R versions

Daily download trend is not available in this view yet.

25530 days

83590 days

3.1K1 year

Compare downloads with other packages →

Also on106 r2u38 autocran

Repository

GitHub ↗ biogenies/cancergram

4Stars

0Forks

0Open issues

0Open PRs

0Releases

49Commits

3Contributors

peptide-identificationanticancer-peptidesbioinformaticsr-packagerandom-forestsn-gramk-mer

49 commits · Last activity 2020-11-19

Stars over time

2022-02-14 · 42026-07-07 · 4

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/biogenies/cancergram on 2026-07-19.

Continuous integration (1)

GitHub Actions

CRAN release process (1)

cran-comments.md

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

Dependencies

Declared dependencies

13 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (7)

biogram devtools pbapply ranger shiny stringi dplyr

LinkingTo (0)

none

Suggests (6)

DT ggplot2 pander rmarkdown shinythemes spelling

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 337 (62%)Rd 205 (38%)

Code characteristics

Object systems

S31

Cyclomatic complexity: 1.0 median / 9 max

Test coverage

Line coverage

Expression

6.4%

Tests / Examples

4.4% / 20% ex

Functions

14 4 exported

Complexity

2.1 avg / 9 max

Call network

14 nodes / 12 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

14 functions

Function	Cyclo	Coverage
CancerGram_gui exp	1	0%
install_CancerGramModel exp	1	0%
pred2df exp	1	0%
read_txt exp	9	0%
calculate_statistics	1	0%
calculate_statistics_mc	1	0%

People & History

People (6)

Maintainer (1)

Michal Burdukiewicz

Maintainer, Author

Authors (2)

Michal Burdukiewicz

Maintainer, Author

Katarzyna Sidorczuk

Author

Contributors (4)

Contributor

Contributor

Contributor

Contributor

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.0.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2020-11-19
Total releases: 1 / 6 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5.0
Bundled data: 2.1 KB / 1 file
Download size: 184 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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