SIMLR

DOI: 10.18129/B9.bioc.SIMLR    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see SIMLR.

Title: SIMLR and CIMLR Multi-kernel LeaRning methods

Bioconductor version: 3.7

In this package we provide implementations of both SIMLR and CIMLR. These methods were originally applied to single-cell and cancer genomic data, but they are in principle capable of effectively and efficiently learning similarities in all the contexts where diverse and heterogeneous statistical characteristics of the data make the problem harder for standard approaches.

Author: Daniele Ramazzotti [aut, cre], Bo Wang [aut], Luca De Sano [aut], Serafim Batzoglou [ctb]

Maintainer: Daniele Ramazzotti <daniele.ramazzotti at yahoo.com>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("SIMLR")

Documentation

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

browseVignettes("SIMLR")

 

PDF	R Script	SIMLR and CIMLR Multi-kernel LeaRning methods
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Clustering, GeneExpression, Sequencing, SingleCell, Software
Version	1.6.0
In Bioconductor since	BioC 3.4 (R-3.3) (2 years)
License	file LICENSE
Depends	R (>= 3.4)
Imports	parallel, Matrix, stats, methods, Rcpp, pracma, RcppAnnoy, RSpectra
LinkingTo	Rcpp
Suggests	BiocGenerics, BiocStyle, testthat, knitr, igraph
SystemRequirements
Enhances
URL	https://github.com/BatzoglouLabSU/SIMLR
BugReports	https://github.com/BatzoglouLabSU/SIMLR
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	SIMLR_1.6.0.tar.gz
Windows Binary	SIMLR_1.6.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	SIMLR_1.6.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/SIMLR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/SIMLR
Package Short Url	http://bioconductor.org/packages/SIMLR/
Package Downloads Report	Download Stats