SIMLR
This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see SIMLR.
Title: SIMLR and CIMLR Multi-kernel LeaRning methods
Bioconductor version: 3.6
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("SIMLR")):
Installation
To install this package, start R (version "3.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SIMLR")
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("SIMLR")| SIMLR and CIMLR Multi-kernel LeaRning methods | R Script | |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Clustering, GeneExpression, Sequencing, SingleCell, Software |
| Version | 1.4.1 |
| In Bioconductor since | BioC 3.4 (R-3.3) (7.5 years) |
| License | file LICENSE |
| Depends | R (>= 3.4) |
| Imports | parallel, Matrix, stats, methods, Rcpp, pracma, RcppAnnoy, RSpectra |
| System Requirements | |
| URL | https://github.com/BatzoglouLabSU/SIMLR |
| Bug Reports | https://github.com/BatzoglouLabSU/SIMLR |
See More
| Suggests | BiocGenerics, BiocStyle, testthat, knitr, igraph |
| Linking To | Rcpp |
| Enhances | |
| 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 | SIMLR_1.4.1.tar.gz |
| Windows Binary | SIMLR_1.4.1.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | SIMLR_1.4.1.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 | https://bioconductor.org/packages/SIMLR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.6 | Source Archive |