iRfcb: Tools for Managing Imaging FlowCytobot (IFCB) Data
A comprehensive suite of tools for managing, processing, and
analyzing data from the IFCB. I R FlowCytobot ('iRfcb') supports
quality control, geospatial analysis, and preparation of IFCB data for
publication in databases like <https://www.gbif.org>,
<https://www.obis.org>, <https://emodnet.ec.europa.eu/en>,
<https://shark.smhi.se/en/>, and <https://www.ecotaxa.org>. The package
integrates with the MATLAB 'ifcb-analysis' tool, which is described in
Sosik and Olson (2007) <doi:10.4319/lom.2007.5.204>, and provides
features for working with raw, manually classified, and machine
learning–classified image datasets. Key functionalities include image
extraction, particle size distribution analysis, taxonomic data
handling, and biomass concentration calculations, essential for
plankton research.
| Version: |
0.8.1 |
| Depends: |
R (≥ 4.1) |
| Imports: |
curl (≥ 6.0.0), dplyr, ggplot2, lifecycle, lubridate, png, R.matlab, readr, reticulate (≥ 1.41.0), sf, shiny, stringr, tidyr, worrms, zip, jsonlite |
| Suggests: |
hdf5r, knitr, mockery, rmarkdown, spelling, testthat (≥
3.0.0) |
| Published: |
2026-03-01 |
| DOI: |
10.32614/CRAN.package.iRfcb |
| Author: |
Anders Torstensson
 [aut, cre]
(Swedish Meteorological and Hydrological Institute),
Kendra Hayashi
[ctb],
Jamie Enslein [ctb],
Raphael Kudela
[ctb],
Alle Lie [ctb],
Jayme Smith [ctb],
DTO-BioFlow [fnd] (Horizon Europe, HORIZON-MISS-2022-OCEAN-01-07),
SBDI [fnd] (Swedish Research Council, 2019-00242) |
| Maintainer: |
Anders Torstensson <anders.torstensson at smhi.se> |
| License: |
MIT + file LICENSE |
| URL: |
https://europeanifcbgroup.github.io/iRfcb/,
https://github.com/EuropeanIFCBGroup/iRfcb |
| NeedsCompilation: |
no |
| Language: |
en-US |
| Citation: |
iRfcb citation info |
| Materials: |
README, NEWS |
| CRAN checks: |
iRfcb results |
Documentation:
Downloads:
Reverse dependencies:
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