R Observatory: Metrics for spider version 1.5.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

spider

1.5.3

Species Identity and Evolution in R

2packages depend

6.8Kdownloads / year

1.6%test coverage

13/13checks pass

Overview

About

Maintained by Rupert A. CollinsFirst published 2011-11-1211 releasesCRAN page ↗GitHub ↗

Analysis of species limits and DNA barcoding data. Included are functions for generating important summary statistics from DNA barcode data, assessing specimen identification efficacy, testing and optimizing divergence threshold limits, assessment of diagnostic nucleotides, and calculation of the probability of reciprocal monophyly. Additionally, a sliding window function offers opportunities to analyse information across a gene, often used for marker design in degraded DNA studies. Further information on the package has been published in Brown et al (2012) doi:10.1111/j.1755-0998.2011.03108.x.

Install

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

install.packages("spider", 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("boopsboops/spider")

Development version from boopsboops/spider. 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-spider

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-spider

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-spider

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

Health

CRAN checks

13OK

Slowest check: 1.8 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.00

1.6%

Coverage · measured lines

100%

Documentation · exports

5

Dependencies · direct

Check history

OK2026-08-04
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-07-18
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-19
11 OK · 0 NOTE · 0 WARNING · 2 ERROR · 0 FAILURE
OK2026-06-13
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

ERROR2026-06-04
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 249 wordsVignettesNopkgdown siteNoNEWSYes · 0% structuredCode of conductNoContributing guideNo

Examples that run: 89%
Documented parameters: 98%
Return-value docs: 100%
References docs: 32%

Downloads

6.8K

CRAN downloads in the past year

Rank #4,968 · ~19/day · ~571/mo

Releases R versions

Daily download trend is not available in this view yet.

28930 days

1.6K90 days

6.8K1 year

Compare downloads with other packages →

Also on106 r2u16 autocran31 c2d4u

Repository

GitHub ↗ boopsboops/spider

5Stars

2Forks

2Open issues

0Open PRs

5Releases

93Commits

2Contributors

dna-barcodespecies-delimitationrednaspecies-identityevolution

93 commits · Last activity 2026-07-14 · 0% stars, 30d

Stars over time

2025-08-18 · 32026-07-07 · 5

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/boopsboops/spider on 2026-08-16.

Continuous integration (2)

GitHub ActionsTravis CI

CRAN release process (1)

cran-comments.md

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

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (5)

ape pegasgraphicsstatsutils

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

0indirect

delimtools quiddich

Code & Tests

People & History

People (7)

Maintainer (1)

Rupert A. Collins

Author, Maintainer, Copyright holder

Authors (7)

Rupert A. Collins

Author, Maintainer, Copyright holder

Stephane Boyer

Author

Samuel Brown

Author

Rob Cruickshank

Author

Marie-Caroline Lefort

Author

Jagoba Malumbres-Olarte

Author

Cor Vink

Author

Copyright holders (1)

Rupert A. Collins

Author, Maintainer, Copyright holder

Listed in earlier versions (2)

Rupert Collins

no longer listed · 1.1-0 to 1.5.0

Collins

no longer listed · 1.5.1 to 1.5.3

Package Timeline

11 releases. Pick two to compare their code metrics. R releases are shown for context.

1.5.3Latest
2026-07-14 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
1.5.2
2026-04-04 · diff ↗
1.5.1
2025-05-09 · diff ↗
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
1.5.0
2018-02-16 · diff ↗
unarchivedReturned to CRAN
2018-02-16
R
R 3.4.0 released · 2017-04-21
archivedRemoved from CRAN
2017-03-19
check problems were not corrected despite reminders

Show 13 earlier events

R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
R
R 3.1.0 released · 2014-04-10
1.3-0
2013-12-27 · diff ↗
R
R 3.0.0 released · 2013-04-03
1.2-0
2012-12-25 · diff ↗
1.1-5
2012-11-15 · diff ↗
1.1-3
2012-04-23 · diff ↗
R
R 2.15.0 released · 2012-03-30
1.1-2
2012-03-14 · diff ↗
1.1-1
2011-12-27 · diff ↗
1.1-0
2011-11-12
R
R 2.14.0 released · 2011-10-31

Package metadata

First published: 2011-11-12
Total releases: 11 / 15 yrs
License: MIT + file LICENSE OSI
Bundled data: 15 KB / 5 files
Download size: 88 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("spider")

Format

Collins, R. A., Boyer, S., Brown, S., Cruickshank, R., Lefort, M., Malumbres-Olarte, J., & Vink, C. (2026). spider: Species Identity and Evolution in R (Version 1.5.3) [Computer software]. https://doi.org/10.32614/CRAN.package.spider

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 spider version 1.5.3 [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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