R Observatory: Metrics for AmyloGram version 1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

AmyloGram

1.1

Prediction of Amyloid Proteins

0packages depend

3.2Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Michal BurdukiewiczFirst published 2016-09-242 releasesCRAN page ↗GitHub ↗

Predicts amyloid proteins 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.

Install

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

install.packages("AmyloGram", 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("michbur/AmyloGram")

Development version from michbur/AmyloGram. 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-amylogram

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-AmyloGram

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-AmyloGram

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: 1.9 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

4

Dependencies · direct

Check history

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

Documentation

READMEYes · 71 wordsVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 67%
References docs: 11%

Downloads

3.2K

CRAN downloads in the past year

Rank #11,848 · ~9/day · ~265/mo

Releases R versions

Daily download trend is not available in this view yet.

21030 days

83590 days

3.2K1 year

Compare downloads with other packages →

Also on116 r2u37 autocran

Repository

GitHub ↗ michbur/amylogram

9Stars

1Forks

2Open issues

0Open PRs

1Releases

53Commits

2Contributors

53 commits · Last activity 2020-05-21

Stars over time

2024-07-25 · 92026-07-07 · 9

Repository practices

Upstream repositoryBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/michbur/amylogram on 2026-08-16.

Continuous integration (1)

Travis CI

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

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.0.0

Imports (4)

biogram ranger seqinr shiny

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (3)

Maintainer (1)

Michal Burdukiewicz

Maintainer, Author

Authors (1)

Michal Burdukiewicz

Maintainer, Author

Contributors (2)

Stefan Roediger

Contributor

Piotr Sobczyk

Contributor

Package Timeline

2 releases. Pick two to compare their code metrics. 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
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
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
1.1Latest
2017-10-11 · current release · diff ↗
R
R 3.4.0 released · 2017-04-21
1.0
2016-09-24
R
R 3.3.0 released · 2016-05-03

Package metadata

First published: 2016-09-24
Total releases: 2 / 10 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.0.0
Bundled data: 257 KB / 3 files
Download size: 343 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("AmyloGram")

Format

Burdukiewicz, M., Roediger, S., & Sobczyk, P. (2017). AmyloGram: Prediction of Amyloid Proteins (Version 1.1) [Computer software]. https://doi.org/10.32614/CRAN.package.AmyloGram

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 AmyloGram version 1.1 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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