destiny

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

Creates diffusion maps

Bioconductor version: Development (3.23)

Create and plot diffusion maps.

Author: Philipp Angerer [cre, aut] ORCID: 0000-0002-0369-2888 , Laleh Haghverdi [ctb], Maren Büttner [ctb] ORCID: 0000-0002-6189-3792 , Fabian Theis [ctb] ORCID: 0000-0002-2419-1943 , Carsten Marr [ctb] ORCID: 0000-0003-2154-4552 , Florian Büttner [ctb] ORCID: 0000-0001-5587-6761

Maintainer: Philipp Angerer <phil.angerer at gmail.com>

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

Installation

To install this package, start R (version "4.6") and enter:


if (!require("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


Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	CellBasedAssays, CellBiology, Clustering, Software, Visualization
Version	3.23.0
In Bioconductor since	BioC 3.2 (R-3.2) (10 years)
License	GPL-3
Depends	R (>= 3.4.0)
Imports	methods, graphics, grDevices, grid, utils, stats, Matrix, Rcpp (>= 0.10.3), RcppEigen, RSpectra (>= 0.14-0), irlba, pcaMethods, Biobase, BiocGenerics, SummarizedExperiment, SingleCellExperiment, ggplot2, ggplot.multistats, rlang, tidyr, tidyselect, ggthemes, VIM, knn.covertree, proxy, RcppHNSW, smoother, scales, scatterplot3d
System Requirements	C++11
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
Bug Reports	https://github.com/theislab/destiny/issues

Suggests	knitr, rmarkdown, igraph, testthat, FNN, tidyverse, gridExtra, cowplot, conflicted, viridis, rgl, scRNAseq, org.Mm.eg.db, scran, repr
Linking To	Rcpp, RcppEigen, grDevices
Enhances	rgl, SingleCellExperiment
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)
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