R Observatory: Metrics for gkmSVM version 0.83.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

gkmSVM

0.83.0Package record

Gapped-Kmer Support Vector Machine

0packages depend

3.5Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Mike BeerCRAN page ↗

Imports the 'gkmSVM' v2.0 functionalities into R https://www.beerlab.org/gkmsvm/ It also uses the 'kernlab' library (separate R package by different authors) for various SVM algorithms. Users should note that the suggested packages 'rtracklayer', 'GenomicRanges', 'BSgenome', 'BiocGenerics', 'Biostrings', 'GenomeInfoDb', 'IRanges', and 'S4Vectors' are all BioConductor packages https://bioconductor.org.

Install

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

install.packages("gkmSVM", 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-gkmsvm

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

# 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-gkmSVM

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

2NOTE11OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Mike Beer <mbeer@jhu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Mahmoud",
                      family = "Ghandi",
                      role = "aut"),
               person(given = "Mike",
                      family = "Beer",
                      role = "cre",
                      email = "mbeer@jhu.edu"))
as necessary.

CRAN check page ↗

Slowest check: 3.8 min · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE10 OK, 4 NOTE2026-04-22
ERROR9 OK, 4 NOTE, 1 ERROR2026-04-18
NOTE10 OK, 4 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.83.0

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 7includes a package overview page
Examples that run: 100%7 run in a plain check
Exported functions with examples: 100%
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 29%

How these are measured

Downloads

3.5K

CRAN downloads in the past year

Rank #7,907 · ~9/day · ~289/mo

Releases R versions

Daily download trend is not available in this view yet.

38030 days

1.1K90 days

3.5K1 year

Compare downloads with other packages →

Also on361 r2u2 autocran1.3K bioconda

How downloads are counted

Dependencies

Declared dependencies

15 external dependencies (excludes base and recommended)

Installing gkmSVM adds 13 packages (9 with compiled code, 20 MB of source tarballs). Heaviest: gplots 4.6 MB, sp 4.3 MB, seqinr 3.4 MB.

Depends (0)

none

Imports (8)

kernlab seqinrutilsROCR RcppgrDevicesgraphicsstats

LinkingTo (1)

Rcpp

Suggests (10)

rtracklayer GenomicRanges BSgenome BSgenome.Hsapiens.UCSC.hg18.masked BSgenome.Hsapiens.UCSC.hg19.masked BiocGenerics Biostrings GenomeInfoDb IRanges S4Vectors

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (from the free-text Author field) (1)

Mahmoud Ghandi

Maintainer since 0.80.0 (2020), previously Mahmoud Ghandi (0.55 to 0.79.0)

Releases (9)

Pick two releases to compare their code metrics.

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
0.83.0Latest
record
2023-08-20 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
0.82.0
record
2023-01-09 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
0.81.0
record
2020-09-01 · diff ↗
R
R 4.0.0 released · 2020-04-24
0.80.0
record
2020-02-25 · diff ↗
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
unarchivedReturned to CRAN
2018-01-18
0.79.0
record
2018-01-18 · diff ↗
archivedRemoved from CRAN
2018-01-04
C++ errors were not corrected

Show 7 earlier eventsHide 7 earlier events

R
R 3.4.0 released · 2017-04-21
0.71.0
record
2016-07-19 · diff ↗
0.70
record
2016-06-27 · diff ↗
R
R 3.3.0 released · 2016-05-03
0.65
record
2015-12-08 · diff ↗
0.55
record
2015-06-30
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2015-06-30
Total releases: 9 / 11 yrs
License: GPL (>= 2) OSI
Download size: 81 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("gkmSVM")

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 gkmSVM version 0.83.0 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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