To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("COMPASS")

In most cases, you don't need to download the package archive at all.

COMPASS

Combinatorial Polyfunctionality Analysis of Single Cells

Bioconductor version: Release (2.14)

COMPASS is a statistical framework that enables unbiased analysis of antigen-specific T-cell subsets. COMPASS uses a Bayesian hierarchical framework to model all observed cell-subsets and select the most likely to be antigen-specific while regularizing the small cell counts that often arise in multi-parameter space. The model provides a posterior probability of specificity for each cell subset and each sample, which can be used to profile a subject's immune response to external stimuli such as infection or vaccination.

Author: Lynn Lin [aut], Kevin Ushey [aut, cre], Greg Finak [aut], Raivo Kolde [ctb] (Author of 'pheatmap', which was modified and now used internally in COMPASS)

Maintainer: Kevin Ushey <kushey at fhcrc.org>

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

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("COMPASS")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("COMPASS")

 

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Details

biocViews FlowCytometry, Software
Version 1.2.1
In Bioconductor since BioC 2.14 (R-3.1)
License Artistic-2.0
Depends R (>= 3.0.2)
Imports Rcpp, data.table, RColorBrewer, scales, grid, plyr, knitr, abind, clue, grDevices, utils
Suggests flowWorkspace(>= 3.9.66), shiny, testthat, devtools, Kmisc
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source COMPASS_1.2.1.tar.gz
Windows Binary COMPASS_1.2.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) COMPASS_1.2.1.tgz
Mac OS X 10.9 (Mavericks) COMPASS_1.2.1.tgz
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