slinky

DOI:10.18129/B9.bioc.slinky

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, seeslinky.

Putting the fun in LINCS L1000 data analysis

Bioconductor version: 3.10

Wrappers to query the L1000 metadata available via the clue.io REST API as well as helpers for dealing with LINCS gctx files, extracting data sets of interest, converting to SummarizedExperiment objects, and some facilities for performing streamlined differential expression analysis of these data sets.

Author: Eric J. Kort

Maintainer: Eric J. Kort

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("slinky")

For older versions of R, please refer to the appropriateBioconductor release.

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("slinky")

HTML	R Script	LINCS analysis with slinky
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DataImport,DifferentialExpression,GeneExpression,GeneSetEnrichment,PatternLogic,Software,ThirdPartyClient
Version	1.4.0
In Bioconductor since	BioC 3.8 (R-3.5) (1.5 years)
License	MIT + fileLICENSE
Depends	R (>= 3.5.0)
Imports	SummarizedExperiment,curl,dplyr,foreach,httr, stats, utils, methods,readr,rhdf5,jsonlite,tidyr
LinkingTo
Suggests	GeoDE,doParallel,testthat,knitr,rmarkdown,ggplot2,Rtsne,Biobase,BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow2021年欧洲杯比分预测 instructions to use this package in your R session.

Source Package	slinky_1.4.0.tar.gz
Windows Binary	slinky_1.4.0.zip
Mac OS X 10.11 (El Capitan)	slinky_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/slinky
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/slinky
Package Short Url	//www.andersvercelli.com/packages/slinky/
Package Downloads Report	Download Stats