rcellminer
This is the development version of rcellminer; for the stable release version, see rcellminer.
rcellminer: Molecular Profiles, Drug Response, and Chemical Structures for the NCI-60 Cell Lines
Bioconductor version: Development (3.21)
The NCI-60 cancer cell line panel has been used over the course of several decades as an anti-cancer drug screen. This panel was developed as part of the Developmental Therapeutics Program (DTP, http://dtp.nci.nih.gov/) of the U.S. National Cancer Institute (NCI). Thousands of compounds have been tested on the NCI-60, which have been extensively characterized by many platforms for gene and protein expression, copy number, mutation, and others (Reinhold, et al., 2012). The purpose of the CellMiner project (http://discover.nci.nih.gov/ cellminer) has been to integrate data from multiple platforms used to analyze the NCI-60 and to provide a powerful suite of tools for exploration of NCI-60 data.
Author: Augustin Luna, Vinodh Rajapakse, Fabricio Sousa
Maintainer: Augustin Luna <augustin.luna at nih.gov>, Vinodh Rajapakse <vinodh.rajapakse at nih.gov>, Fathi Elloumi <fathi.elloumi at nih.gov>
citation("rcellminer")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("rcellminer")
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("rcellminer")| Using rcellminer | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | CellBasedAssays, Cheminformatics, CopyNumberVariation, GeneExpression, Pharmacogenetics, Pharmacogenomics, Software, SystemsBiology, Visualization, aCGH, miRNA |
| Version | 2.29.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (9.5 years) |
| License | LGPL-3 + file LICENSE |
| Depends | R (>= 3.2), Biobase, rcellminerData(>= 2.0.0) |
| Imports | stringr, gplots, ggplot2, methods, stats, utils, shiny |
| System Requirements | |
| URL | http://discover.nci.nih.gov/cellminer/ |
See More
| Suggests | knitr, RColorBrewer, sqldf, BiocGenerics, testthat, BiocStyle, jsonlite, heatmaply, glmnet, foreach, doSNOW, parallel, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | rcellminerData |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | rcellminer_2.29.0.tar.gz |
| Windows Binary (x86_64) | rcellminer_2.29.0.zip (64-bit only) |
| macOS Binary (x86_64) | rcellminer_2.29.0.tgz |
| macOS Binary (arm64) | rcellminer_2.29.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/rcellminer |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/rcellminer |
| Bioc Package Browser | https://code.bioconductor.org/browse/rcellminer/ |
| Package Short Url | https://bioconductor.org/packages/rcellminer/ |
| Package Downloads Report | Download Stats |