detrendr

0.6.15

Detrend Images

1packages depend

10.3Kdownloads / year

98.1%test coverage

13/13checks pass

Overview

About

Maintained by Rory NolanFirst published 2017-10-2420 releasesCRAN page ↗GitHub ↗

Detrend fluorescence microscopy image series for fluorescence fluctuation and correlation spectroscopy ('FCS' and 'FFS') analysis. This package contains functionality published in a 2016 paper doi:10.1093/bioinformatics/btx434 but it has been extended since then with the Robin Hood algorithm and thus contains unpublished work.

Install

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

install.packages("detrendr", 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("rorynolan/detrendr")

Development version from rorynolan/detrendr. 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-detrendr

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

# 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-detrendr

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

Health

CRAN checks

13OK

Slowest check: 5.5 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.40

98.1%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-07
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-05-06
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-28
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 5 earlier snapshots

ERROR2026-04-27
11 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-04-22
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
10 OK · 3 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 173 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 45%
Documented parameters: 100%
Return-value docs: 100%
References docs: 36%

Downloads

10.3K

CRAN downloads in the past year

Rank #4,165 · ~28/day · ~860/mo

Releases R versions

Daily download trend is not available in this view yet.

50330 days

2.2K90 days

10.3K1 year

Compare downloads with other packages →

Also on408 r2u31 autocran

Repository

GitHub ↗ rorynolan/detrendr

3Stars

1Forks

0Open issues

0Open PRs

6Releases

167Commits

3Contributors

167 commits · Last activity 2025-01-27

Stars over time

2023-01-29 · 32026-07-07 · 3

Repository practices

Upstream repositoryBeta

7 development-tooling and community-health practices detected across 7 families in the upstream repository

Checks run against github.com/rorynolan/detrendr on 2026-07-26.

Continuous integration (1)

GitHub Actions

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Research and citation (1)

codemeta.json

Show all practices

Automation and maintenance (1)

pre-commit

Lint, format, editor (1)

RStudio project

Git structural (1)

.gitattributes

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

Dependencies

Declared dependencies

32 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.1

Imports (19)

arrayhelpers autothresholdr checkmate doParallel dplyr filesstrings foreach ijtiff iterators magrittrparallelplyr purrr Rcpp RcppParallel (>= 5.1.7)rlang stringrtoolswithr (>= 2.1)

LinkingTo (2)

Rcpp RcppParallel

Suggests (17)

abind covr ggplot2 gluegraphicsgridExtra knitrlatticeMASSmatrixStatsmgcvpacman R.utils rmarkdown spelling testthat tidyr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

nandb

Code & Tests

People & History

People (3)

Maintainer (1)

Rory Nolan

Author, Maintainer

Authors (1)

Rory Nolan

Author, Maintainer

Contributors (2)

Luis Alvarez

Contributor, Copyright holder · added in 0.6.0

Sergi Padilla-Parra

Contributor, Thesis advisor, Copyright holder

Luis Alvarez

Contributor, Copyright holder · added in 0.6.0

Sergi Padilla-Parra

Contributor, Thesis advisor, Copyright holder

Package Timeline

20 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
0.6.15Latest
2023-03-04 · current release · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
0.6.14
2021-05-16 · diff ↗
0.6.13
2021-04-21 · diff ↗
0.6.12
2021-02-08 · diff ↗
0.6.11
2021-01-13 · diff ↗
0.6.9
2020-09-03 · diff ↗
0.6.8
2020-08-03 · diff ↗
0.6.7
2020-06-24 · diff ↗
0.6.6
2020-05-08 · diff ↗
R
R 4.0.0 released · 2020-04-24

Show 14 earlier events

0.6.5
2020-03-16 · diff ↗
0.6.4
2019-07-08 · diff ↗
0.6.3
2019-06-29 · diff ↗
0.6.2
2019-06-15 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.6.1
2019-04-13 · diff ↗
0.6.0
2018-11-09 · diff ↗
0.5.1
2018-04-24 · diff ↗
R
R 3.5.0 released · 2018-04-23
0.5.0
2018-04-19 · diff ↗
0.4.0
2018-02-18 · diff ↗
0.2.0
2018-01-04 · diff ↗
0.1.0
2017-10-24
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-10-24
Total releases: 20 / 9 yrs
License: BSD_3_clause + file LICENSE OSI
Minimum R: ≥ 3.1
Download size: 740 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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