DiscoRhythm

Interactive Workflow for Discovering Rhythmicity in Biological Data

Bioconductor version: 3.23 · Package version: 1.28.0

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.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("DiscoRhythm")

Details

Maintainer	Matthew Carlucci <Matthew.Carlucci@camh.ca>
Author	Matthew Carlucci [aut, cre], Algimantas Kriščiūnas [aut], Haohan Li [aut], Povilas Gibas [aut], Karolis Koncevičius [aut], Art Petronis [aut], Gabriel Oh [aut]
License	GPL-3
URL	https://github.com/matthewcarlucci/DiscoRhythm
Bug Reports	https://github.com/matthewcarlucci/DiscoRhythm/issues
System Requirements	To generate html reports pandoc (http://pandoc.org/installing.html) is required.
Downloads rank	328
Source branch	RELEASE_3_23
biocViews	GUI, PrincipalComponent, QualityControl, Software, TimeCourse, Visualization

Documentation

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

Download

Source package

Dependencies

Depends: R (>= 3.6.0)

Imports: matrixTests, matrixStats, MetaCycle (>= 1.2.0), data.table, ggplot2, ggExtra, dplyr, broom, shiny, shinyBS, shinycssloaders, shinydashboard, shinyjs, BiocStyle, rmarkdown, knitr, kableExtra, magick, VennDiagram, UpSetR, heatmaply, viridis, plotly, DT, gridExtra, methods, stats, SummarizedExperiment, BiocGenerics, S4Vectors, zip, reshape2

Suggests: testthat