Package: cytominer 0.2.2.9000

Shantanu Singh

cytominer: Methods for Image-Based Cell Profiling

`cytominer` is a suite of common functions used to process high-dimensional readouts from image-based cell profiling experiments.

Authors:Tim Becker [aut], Allen Goodman [aut], Claire McQuin [aut], Mohammad Rohban [aut], Shantanu Singh [aut, cre]

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cytominer.pdf |cytominer.html✨
cytominer/json (API)
NEWS

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

Bug tracker:https://github.com/cytomining/cytominer/issues

On CRAN:

Conda:

microscopyprofiling

6.89 score 50 stars 44 scripts 234 downloads 22 exports 81 dependencies

Last updated 2 years agofrom:d911eb5bc1. Checks:1 OK, 8 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 13 2025
R-4.5-winNOTEMar 13 2025
R-4.5-macNOTEMar 13 2025
R-4.5-linuxNOTEMar 13 2025
R-4.4-winNOTEMar 13 2025
R-4.4-macNOTEMar 13 2025
R-4.4-linuxNOTEMar 13 2025
R-4.3-winNOTEMar 13 2025
R-4.3-macNOTEMar 13 2025

Exports:aggregatecorrelation_thresholdcount_na_rowscovariancedrop_na_columnsdrop_na_rowsextract_subpopulationsfind_significant_pcsgeneralized_loggenerate_component_matrixhuskmark_outlier_rowsnormalizereplicate_correlationsparse_random_projectionspherizestratifysvd_entropytransformvariable_importancevariable_selectvariance_threshold

Dependencies:caretclasscliclockcodetoolscolorspacecpp11data.tablediagramdigestdoParalleldplyre1071fansifarverforeachformatRfutile.loggerfutile.optionsfuturefuture.applygenericsggplot2globalsgluegowergtablehardhatipredisobanditeratorsKernSmoothlabelinglambda.rlatticelavalifecyclelistenvlubridatemagrittrMASSMatrixmgcvModelMetricsmunsellnlmennetnumDerivparallellypillarpkgconfigplyrpROCprodlimprogressrproxypurrrR6RColorBrewerRcpprecipesreshape2rlangrpartscalesshapesparsevctrsSQUAREMstringistringrsurvivaltibbletidyrtidyselecttimechangetimeDatetzdbutf8vctrsviridisLitewithr

Introduction to cytominer

Allen Goodman and Shantanu Singh

Rendered fromcytominer-pipeline.Rmdusingknitr::rmarkdownon Mar 13 2025.

Last update: 2020-03-24
Started: 2017-09-07