SIMLR

DOI: 10.18129/B9.bioc.SIMLR    

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

Title: SIMLR and CIMLR Multi-kernel LeaRning methods

Bioconductor version: Development (3.8)

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>

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

Installation

To install this package, start R and enter:

if (!require("BiocManager"))
    install.packages("BiocManager")
BiocManager::install("SIMLR", version = "devel")

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 1.7.0
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
Build Report  

Package Archives

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

Source Package SIMLR_1.7.0.tar.gz
Windows Binary SIMLR_1.7.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) SIMLR_1.7.0.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

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