Package: flowSpecs 1.21.0

Jakob Theorell

flowSpecs: Tools for processing of high-dimensional cytometry data

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.

Authors:Jakob Theorell [aut, cre]

flowSpecs_1.21.0.tar.gz
flowSpecs_1.21.0.zip(r-4.5)flowSpecs_1.21.0.zip(r-4.4)flowSpecs_1.21.0.zip(r-4.3)
flowSpecs_1.21.0.tgz(r-4.5-any)flowSpecs_1.21.0.tgz(r-4.4-any)flowSpecs_1.21.0.tgz(r-4.3-any)
flowSpecs_1.21.0.tar.gz(r-4.5-noble)flowSpecs_1.21.0.tar.gz(r-4.4-noble)
flowSpecs_1.21.0.tgz(r-4.4-emscripten)flowSpecs_1.21.0.tgz(r-4.3-emscripten)
flowSpecs.pdf |flowSpecs.html
flowSpecs/json (API)
NEWS

# Install 'flowSpecs' in R:
install.packages('flowSpecs', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/jtheorell/flowspecs/issues

Datasets:

On BioConductor:flowSpecs-1.21.0(bioc 3.21)flowSpecs-1.20.0(bioc 3.20)

softwarecellbasedassaysdatarepresentationimmunooncologyflowcytometrysinglecellvisualizationnormalizationdataimport

4.38 score 6 stars 7 scripts 254 downloads 8 exports 52 dependencies

Last updated 5 months agofrom:5ac3e4ed46. Checks:1 OK, 8 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 29 2025
R-4.5-winNOTEMar 29 2025
R-4.5-macNOTEMar 29 2025
R-4.5-linuxNOTEMar 29 2025
R-4.4-winNOTEMar 29 2025
R-4.4-macNOTEMar 29 2025
R-4.4-linuxNOTEMar 29 2025
R-4.3-winNOTEMar 29 2025
R-4.3-macNOTEMar 29 2025

Exports:arcTranscorrectUnmixcorrMatCreateflowSet2LongDfoneVsAllPlotpeakNormspecMatCalcspecUnmix

Dependencies:BHBiobaseBiocGenericsBiocParallelclicodetoolscolorspacecpp11cytolibfansifarverflowCoreformatRfutile.loggerfutile.optionsgenericsggplot2gluegtableisobandlabelinglambda.rlatticelifecyclemagrittrMASSMatrixmatrixStatsmgcvmunsellnlmepillarpkgconfigplyrR6RColorBrewerRcppreshape2Rhdf5librlangRProtoBufLibS4Vectorsscalessnowstringistringrtibbleutf8vctrsviridisLitewithrzoo

Example workflow for processing of raw spectral cytometry files

Rendered fromflowSpecs_vinjette.Rmdusingknitr::rmarkdownon Mar 29 2025.

Last update: 2022-07-23
Started: 2019-09-16