Package: DiscoRhythm 1.23.0

Matthew Carlucci

DiscoRhythm: Interactive Workflow for Discovering Rhythmicity in Biological Data

Set of functions for estimation of cyclical characteristics, such as period, phase, amplitude, and statistical significance in large temporal datasets. Supporting functions are available for quality control, dimensionality reduction, spectral analysis, and analysis of experimental replicates. Contains a R Shiny web interface to execute all workflow steps.

Authors:Matthew Carlucci [aut, cre], Algimantas Kriščiūnas [aut], Haohan Li [aut], Povilas Gibas [aut], Karolis Koncevičius [aut], Art Petronis [aut], Gabriel Oh [aut]

DiscoRhythm_1.23.0.tar.gz
DiscoRhythm_1.23.0.zip(r-4.5)DiscoRhythm_1.23.0.zip(r-4.4)DiscoRhythm_1.23.0.zip(r-4.3)
DiscoRhythm_1.23.0.tgz(r-4.5-any)DiscoRhythm_1.23.0.tgz(r-4.4-any)DiscoRhythm_1.23.0.tgz(r-4.3-any)
DiscoRhythm_1.23.0.tar.gz(r-4.5-noble)DiscoRhythm_1.23.0.tar.gz(r-4.4-noble)
DiscoRhythm_1.23.0.tgz(r-4.4-emscripten)DiscoRhythm_1.23.0.tgz(r-4.3-emscripten)
DiscoRhythm.pdf |DiscoRhythm.html✨
DiscoRhythm/json (API)
NEWS

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

Bug tracker:https://github.com/matthewcarlucci/discorhythm/issues

Datasets:

On BioConductor:DiscoRhythm-1.23.0(bioc 3.21)DiscoRhythm-1.22.0(bioc 3.20)

softwaretimecoursequalitycontrolvisualizationguiprincipalcomponentbioconductordata-visualizationoscillationsrhythm-detectionwebapp

5.89 score 13 stars 9 scripts 264 downloads 2 mentions 15 exports 148 dependencies

Last updated 5 months agofrom:9e4ec1f7b1. 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:discoAppdiscoBatchdiscoCheckInputdiscoDesignSummarydiscoDFtoSEdiscoGetODAsdiscoGetSimudiscoInterCorOutliersdiscoODAsdiscoParseMetadiscoPCAdiscoPCAoutliersdiscoPeriodDetectiondiscoRepAnalysisdiscoSEtoDF

Dependencies:abindaskpassassertthatbackportsbase64encBiobaseBiocGenericsBiocManagerBiocStylebookdownbroombslibcacachemcallrcliclustercodetoolscolorspacecolourpickercommonmarkcpp11crayoncrosstalkcurldata.tableDelayedArraydendextenddigestdplyrDTeggevaluatefansifarverfastmapfontawesomeforeachformatRfsfutile.loggerfutile.optionsgclusgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggExtraggplot2gluegnmgridExtragtableheatmaplyhighrhtmltoolshtmlwidgetshttpuvhttrIRangesisobanditeratorsjquerylibjsonlitekableExtraknitrlabelinglambda.rlaterlatticelazyevallifecyclemagickmagrittrMASSMatrixMatrixGenericsmatrixStatsmatrixTestsmemoiseMetaCyclemgcvmimeminiUImunsellnlmennetopensslpermutepillarpkgconfigplotlyplyrprocessxpromisespspurrrqapqvcalcR6rappdirsRColorBrewerRcppregistryrelimpreshape2rlangrmarkdownrstudioapiS4ArraysS4VectorssassscalesseriationshinyshinyBSshinycssloadersshinydashboardshinyjssourcetoolsSparseArraystringistringrSummarizedExperimentsvglitesyssystemfontstibbletidyrtidyselecttinytexTSPUCSC.utilsUpSetRutf8vctrsveganVennDiagramviridisviridisLitewebshotwithrxfunxml2xtableXVectoryamlzip

Introduction to r BiocStyle::Biocpkg('DiscoRhythm')

Matthew Carlucci, Algimantas Kriščiūnas, Haohan Li, Povilas Gibas, Karolis Koncevičius, Art Petronis, Gabriel Oh

Rendered fromdisco_workflow_vignette.Rmdusingknitr::rmarkdownon Mar 29 2025.

Last update: 2020-09-29
Started: 2019-04-05