R Observatory: Metrics for IFC version 0.2.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

IFC

0.2.1Package record

Tools for Imaging Flow Cytometry

0packages depend

3.4Kdownloads / year

–test coverage

12/13flavors OK

Overview

About

Maintained by Yohann DemontCRAN page ↗GitHub ↗Issues ↗

Contains several tools to treat imaging flow cytometry data from 'ImageStream®' and 'FlowSight®' cytometers ('Amnis®' 'Cytek®'). Provides an easy and simple way to read and write .fcs, .rif, .cif and .daf files. Information such as masks, features, regions and populations set within these files can be retrieved for each single cell. In addition, raw data such as images stored can also be accessed. Users, may hopefully increase their productivity thanks to dedicated functions to extract, visualize, manipulate and export 'IFC' data. Toy data example can be installed through the 'IFCdata' package of approximately 32 MB, which is available in a 'drat' repository https://gitdemont.github.io/IFCdata/. See file 'COPYRIGHTS' and file 'AUTHORS' for a list of copyright holders and authors.

Install

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

install.packages("IFC", 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("gitdemont/IFC")

Development version from gitdemont/IFC. 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-ifc

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

# 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-IFC

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-IFC

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

1ERROR12OK

Check messages

ERRORwhether package can be installedr-release-macos-x86_64

Installation failed.
See ‘/Volumes/Builds/packages/big-sur-x86_64/results/4.6/IFC.Rcheck/00install.out’ for details.

CRAN check page ↗

Slowest check: 5.3 min · r-oldrel-windows-x86_64

Status changes

ERROR12 OK, 1 ERRORNow
ERROR11 OK, 1 ERROR2026-04-25
NOTE11 OK, 3 NOTE2026-04-22
ERROR10 OK, 3 NOTE, 1 ERROR2026-04-18
NOTE11 OK, 3 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.2.1

READMENoVignettesNoNEWSNoCitation fileYes · software entry only

Help pages: 268 (210 internal)includes a package overview page
Examples that run: 100%19 run in a plain check (19 of them under a condition)
Exported functions with examples: 35%
Documented parameters: 85%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

3.4K

CRAN downloads in the past year

Rank #9,952 · ~9/day · ~284/mo

Releases R versions

Daily download trend is not available in this view yet.

36830 days

99790 days

3.4K1 year

Compare downloads with other packages →

Also on356 r2u4 autocran

How downloads are counted

Repository

gitdemont/ifc ↗Account: gitdemont

7Stars

3Forks

3Open issues

0Open PRs

0Releases

1,003Commits

4Commit identities

ifcflowcytometryimagecytometry-dataflow-cytometryimaging-flow-cytometryflow-cytometry-data

License file reads as GPL-3.0 · 1,003 commits · Last activity 2026-10-20 · 0% stars, 30d · Default branch at 0.2.1.833, ahead of CRAN 0.2.1 (checked 2026-10-18)

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 34
Median days to close, 50 most recently updated closed PRs: 4

Stars over time

2025-05-31 · 42026-07-07 · 7

How these are measured

PracticesBeta

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

Checks run against github.com/gitdemont/ifc on 2026-10-18.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (2)

GitHub Pages site last deployed 2024-12-10 · The repository has a site deploy workflow

CRAN release process (1)

cran-comments.md

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

14 external dependencies (excludes base and recommended)

Installing IFC adds 47 packages (25 with compiled code, 35 MB of source tarballs). Heaviest: bslib 5.6 MB, visNetwork 4.1 MB, promises 3.1 MB.

Depends (1)

R >= 3.4.0

Imports (11)

Rcpp xml2utilsgridgridExtra gridGraphicslatticelatticeExtraKernSmoothDT visNetwork

LinkingTo (1)

Rcpp

Suggests (6)

IFCdata shiny reticulate png tiff jpeg

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (5)

Yohann Demont

Author, Maintainer since 0.0.8 (2020)

Gautier Stoll

Contributor

Loïc Garçon

ldr

Guido Kroemer

ldr

Jean-Pierre Marolleau

ldr

Releases (10)

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
0.2.1Latest
record
2023-09-14 · current release · diff ↗ ·
added 2 exports
ExtractMasks_toBase64, ExtractMasks_toFile
R
R 4.3.0 released · 2023-04-21
0.2.0
record
2023-02-13 · diff ↗
0.1.8
record
2022-11-29 · diff ↗
0.1.7
record
2022-10-05 · diff ↗ ·
added 2 exports
data_add_graphs, data_rm_graphs
0.1.6
record
2022-08-22 · diff ↗ ·
added 1 export
popsRename
0.1.5
record
2022-05-25 · diff ↗ ·
added 1 export
BatchReport
R
R 4.2.0 released · 2022-04-22
0.1.2
record
2021-10-13 · diff ↗ ·
added 4 exports
ExtractFromFCS, readFCS, ExportToFCS, popsCompute
R
R 4.1.0 released · 2021-05-18
0.1.1
record
2020-12-18 · diff ↗ ·
added 3 exports
data_rm_features, data_rm_regions, data_rm_pops
0.0.9
record
2020-07-24 · diff ↗
0.0.8
record
2020-07-13

Show 1 earlier eventHide 1 earlier event

R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2020-07-13
Total releases: 10 / 6 yrs
License: GPL-3 OSI
Copyright: See inst/COPYRIGHTS in the package
Additional repositories: gitdemont.github.io
Minimum R: ≥ 3.4.0
Download size: 434 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("IFC")

The package provides a citation file, so citation() returns the authors' own entry.

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 IFC version 0.2.1 [Data set]. HJJB, LLC. Data release v2026-10-20. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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