DOI: 10.18129/B9.bioc.flowSpecs    

This is the development version of flowSpecs; for the stable release version, see flowSpecs.

Tools for processing of high-dimensional cytometry data

Bioconductor version: Development (3.15)

This package is intended to fill the role of conventional cytometry pre-processing software, for spectral decomposition, transformation, visualization and cleanup, and to aid further downstream analyses, such as with DepecheR, by enabling transformation of flowFrames and flowSets to dataframes. Functions for flowCore-compliant automatic 1D-gating/filtering are in the pipe line. The package name has been chosen both as it will deal with spectral cytometry and as it will hopefully give the user a nice pair of spectacles through which to view their data.

Author: Jakob Theorell [aut, cre]

Maintainer: Jakob Theorell <jakob.theorell at ndcn.ox.ac.uk>

Citation (from within R, enter citation("flowSpecs")):


To install this package, start R (version "4.2") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script Example workflow for processing of raw spectral cytometry files
PDF   Reference Manual
Text   NEWS


biocViews CellBasedAssays, DataImport, DataRepresentation, FlowCytometry, ImmunoOncology, Normalization, SingleCell, Software, Visualization
Version 1.9.0
In Bioconductor since BioC 3.10 (R-3.6) (2 years)
License MIT + file LICENSE
Depends R (>= 4.0)
Imports ggplot2 (>= 3.1.0), BiocGenerics(>= 0.30.0), BiocParallel(>= 1.18.1), Biobase(>= 2.48.0), reshape2 (>= 1.4.3), flowCore(>= 1.50.0), zoo (>= 1.8.6), stats (>= 3.6.0), methods (>= 3.6.0)
Suggests testthat, knitr, rmarkdown, BiocStyle, DepecheR
BugReports https://github.com/jtheorell/flowSpecs/issues
Depends On Me
Imports Me
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Source Package flowSpecs_1.9.0.tar.gz
Windows Binary
macOS 10.13 (High Sierra) flowSpecs_1.9.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/flowSpecs
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/flowSpecs
Package Short Url https://bioconductor.org/packages/flowSpecs/
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