PolyfunctionalityScore

PolyfunctionalityScore.COMPASSResult

PolyfunctionalityScore.default

An object of class <code>COMPASSResult</code>, as returned by
<code><a rd-options="" href="/link/COMPASS?package=COMPASS&version=1.8.0" data-mini-rdoc="COMPASS::COMPASS">COMPASS</a></code>. Alternatively, a matrix of functionality scores.

A vector of weights. If missing, this is the 'degree of
functionality', that is, the number of markers expressed in a particular
category.

degree

The total number of markers. This is inferred when <code>x</code> is a
<code>COMPASSResult</code>, and is unused in that case.


Computes the Polyfunctionality score for each observation from the
gamma matrix of a <code>COMPASS</code> model fit. The scores are normalized to
one.


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.

Greg Finak

COMPASS

Combinatorial Polyfunctionality Analysis of Single Cells

PolyfunctionalityScore function

An object of class <code>COMPASSResult</code>, as returned by
<code><a rd-options='' href='COMPASS'>COMPASS</a></code>. Alternatively, a matrix of functionality scores.

PolyfunctionalityScore: Compute the Polyfunctionality Score for each subject fit in a COMPASS model

Description

Usage

Arguments

Value

Examples