ImmuneSpaceR

DOI: 10.18129/B9.bioc.ImmuneSpaceR    

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

A Thin Wrapper around the ImmuneSpace Database

Bioconductor version: Development (3.11)

Provides a convenient API for accessing data sets within ImmuneSpace (www.immunespace.org), the data repository and analysis platform of the Human Immunology Project Consortium (HIPC).

Author: Greg Finak [aut], Renan Sauteraud [aut], Mike Jiang [aut], Gil Guday [aut], Leo Dashevskiy [aut], Evan Henrich [aut], Ju Yeong Kim [aut], Lauren Wolfe [aut], Helen Miller [aut], Raphael Gottardo [aut], ImmuneSpace Package Maintainer [cre, cph]

Maintainer: ImmuneSpace Package Maintainer <immunespace at gmail.com>

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

Installation

To install this package, start R (version "4.0") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("ImmuneSpaceR")

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("ImmuneSpaceR")

 

HTML R Script An Introduction to the ImmuneSpaceR Package
HTML R Script Downloading Datasets with getDataset
HTML R Script Handling Expression Matrices with ImmuneSpaceR
HTML R Script interactive_netrc() Function Walkthrough
HTML R Script SDY144: Correlation of HAI/Virus Neutralizition Titer and Cell Counts
HTML R Script SDY180: Abundance of Plasmablasts Measured by Multiparameter Flow Cytometry
HTML R Script SDY269: Correlating HAI with Flow Cytometry and ELISPOT Results
PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, DataRepresentation, Software, ThirdPartyClient
Version 1.15.0
In Bioconductor since BioC 3.3 (R-3.3) (3.5 years)
License GPL-2
Depends R (>= 3.5.0)
Imports utils, R6, data.table, curl, httr, Rlabkey (>= 2.3.1), Biobase, pheatmap, ggplot2 (>= 3.2.0), scales, stats, gplots, plotly, heatmaply (>= 0.7.0), jsonlite, rmarkdown, preprocessCore, flowCore, flowWorkspace, digest
LinkingTo
Suggests knitr, testthat
SystemRequirements
Enhances
URL https://github.com/RGLab/ImmuneSpaceR
BugReports https://github.com/RGLab/ImmuneSpaceR/issues
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 ImmuneSpaceR_1.15.0.tar.gz
Windows Binary ImmuneSpaceR_1.15.0.zip
Mac OS X 10.11 (El Capitan) ImmuneSpaceR_1.15.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ImmuneSpaceR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ImmuneSpaceR
Package Short Url https://bioconductor.org/packages/ImmuneSpaceR/
Package Downloads Report Download Stats

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