To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://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 (3.4)

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, Kevin Ushey, Greg Finak, Ravio Kolde (pheatmap)

Maintainer: Greg Finak <gfinak at fhcrc.org>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("COMPASS")

Documentation

HTML R Script COMPASS
PDF   Reference Manual
Text   NEWS

Details

biocViews FlowCytometry, Software
Version 1.12.0
In Bioconductor since BioC 2.14 (R-3.1) (3 years)
License Artistic-2.0
Depends R (>= 3.0.2)
Imports Rcpp, data.table, RColorBrewer, scales, grid, plyr, knitr, abind, clue, grDevices, utils, pdist
LinkingTo Rcpp (>= 0.11.0)
Suggests flowWorkspace(>= 3.9.66), flowCore, ncdfFlow, shiny, testthat, devtools, Kmisc, flowWorkspaceData
SystemRequirements
Enhances
URL
BugReports https://github.com/RGLab/COMPASS/issues
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source COMPASS_1.12.0.tar.gz
Windows Binary COMPASS_1.12.0.zip (32- & 64-bit)
Mac OS X 10.9 (Mavericks) COMPASS_1.12.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/COMPASS/tree/release-3.4
Package Short Url http://bioconductor.org/packages/COMPASS/
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