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

 

   

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

Combinatorial Polyfunctionality Analysis of Single Cells

Bioconductor version: Development (3.3)

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

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

browseVignettes("COMPASS")

 

HTML COMPASS
PDF   Reference Manual
Text   NEWS

Details

biocViews FlowCytometry, Software
Version 1.9.1
In Bioconductor since BioC 2.14 (R-3.1) (2 years)
License Artistic-2.0
Depends R (>= 3.0.2)
Imports Rcpp, data.table, RColorBrewer, scales, grid, plyr, knitr, abind, clue, grDevices, utils
LinkingTo Rcpp (>= 0.11.0)
Suggests flowWorkspace(>= 3.9.66), flowCore, ncdfFlow, shiny, testthat, devtools, Kmisc
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_1.9.1.tar.gz
Windows Binary COMPASS_1.9.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) COMPASS_1.7.2.tgz
Mac OS X 10.9 (Mavericks) COMPASS_1.9.1.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/COMPASS
Package Short Url http://bioconductor.org/packages/COMPASS/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

Fred Hutchinson Cancer Research Center