ImmuneSpaceR
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see ImmuneSpaceR.
A Thin Wrapper around the ImmuneSpace Database
Bioconductor version: 3.9
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("ImmuneSpaceR")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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")| 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 | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, DataRepresentation, Software, ThirdPartyClient |
| Version | 1.12.2 |
| In Bioconductor since | BioC 3.3 (R-3.3) (8 years) |
| License | GPL-2 |
| Depends | |
| Imports | utils, R6, data.table, curl, httr, Rlabkey (>= 2.1.136), Biobase, pheatmap, ggplot2 (>= 3.2.0), scales, stats, gplots, plotly, heatmaply (>= 0.7.0), jsonlite, rmarkdown, preprocessCore, flowCore, flowWorkspace, digest |
| System Requirements | |
| URL | https://github.com/RGLab/ImmuneSpaceR |
| Bug Reports | https://github.com/RGLab/ImmuneSpaceR/issues |
See More
| Suggests | knitr, testthat |
| Linking To | |
| 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 | ImmuneSpaceR_1.12.2.tar.gz |
| Windows Binary | ImmuneSpaceR_1.12.2.zip |
| Mac OS X 10.11 (El Capitan) | ImmuneSpaceR_1.12.2.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ImmuneSpaceR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ImmuneSpaceR |
| Bioc Package Browser | https://code.bioconductor.org/browse/ImmuneSpaceR/ |
| Package Short Url | https://bioconductor.org/packages/ImmuneSpaceR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |