destiny

DOI: 10.18129/B9.bioc.destiny    

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

Creates diffusion maps

Bioconductor version: Development (3.12)

Create and plot diffusion maps.

Author: Philipp Angerer [cre, aut] , Laleh Haghverdi [ctb], Maren Büttner [ctb] , Fabian Theis [ctb] , Carsten Marr [ctb] , Florian Büttner [ctb]

Maintainer: Philipp Angerer <philipp.angerer at helmholtz-muenchen.de>

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

Installation

To install this package, start R (version "4.0") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("destiny")

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

Documentation

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

browseVignettes("destiny")

 

PDF Diffusion-Map-recap.pdf
PDF Diffusion-Maps.pdf
PDF DPT.pdf
PDF Gene-Relevance.pdf
PDF Global-Sigma.pdf
PDF tidyverse.pdf
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews CellBasedAssays, CellBiology, Clustering, Software, Visualization
Version 3.3.0
In Bioconductor since BioC 3.2 (R-3.2) (4.5 years)
License GPL
Depends R (>= 3.4.0)
Imports methods, graphics, grDevices, utils, stats, Matrix, Rcpp (>= 0.10.3), RcppEigen, RSpectra (>= 0.14-0), irlba, pcaMethods, Biobase, BiocGenerics, SummarizedExperiment, SingleCellExperiment, ggplot2, ggplot.multistats, tidyr, tidyselect, ggthemes, VIM, knn.covertree, proxy, RcppHNSW, smoother, scales, scatterplot3d
LinkingTo Rcpp, RcppEigen, grDevices
Suggests nbconvertR (>= 1.3.2), igraph, testthat, FNN, tidyr
SystemRequirements C++11, jupyter nbconvert (see nbconvertR’s INSTALL file)
Enhances rgl, SingleCellExperiment
URL https://theislab.github.io/destiny/ https://github.com/theislab/destiny/ https://www.helmholtz-muenchen.de/icb/destiny https://bioconductor.org/packages/destiny https://doi.org/10.1093/bioinformatics/btv715
BugReports https://github.com/theislab/destiny/issues
Depends On Me
Imports Me ctgGEM, flowSpy, phemd
Suggests Me CellTrails, monocle, scater, slingshot
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package destiny_3.3.0.tar.gz
Windows Binary destiny_3.3.0.zip
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/destiny
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/destiny
Package Short Url https://bioconductor.org/packages/destiny/
Package Downloads Report Download Stats

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