beefedUpSNC: fSVA and Nearest Shrunken Centroid classifier

In MalteThodberg/BEEF: Batch Effect Estimation with fSVA (Frozen Surrogate Variable Analysis)

Description

Couples together fSVA with Nearest Shrunken Centroid classifier.

Usage

beefedUpSNC(x, y, n.sv, threshold, ...)

Arguments

x	matrix: Normalized and log-transformed expression values (samples in rows, features in columns).
y	factor: Class labels.
n.sv	integer: Number of surrogate variables to estimate.
threshold	numeric: Amount of centroid shrinkage (controls how many features are retained in the model).
...	additional arguments passed to smartsva.

Value

beefedUpNSC object.

Examples

# ADD_EXAMPLES_HERE

MalteThodberg/BEEF documentation built on May 7, 2019, 2:09 p.m.