modFilter: Hard Filter Data

In tpq/exprso: Rapid Deployment of Machine Learning Algorithms

Description

modFilter imposes a hard filter for (gene expression) feature data.

Usage

modFilter(object, threshold, maximum, beta1, beta2)

Arguments

object	An ExprsArray object to undergo pre-processing.
threshold	A numeric scalar. The value below which to assign this value.
maximum	A numeric scalar. The value above which to assign this value.
beta1	A numeric scalar. The max - min range above which to include the feature. Inclusive with beta2.
beta2	A numeric scalar. The max / min ratio above which to include the feature. Inclusive with beta1.

Details

This method reproduces the hard filter described by Deb and Reddy (2003) for pre-processing the hallmark Golub ALL/AML dataset. This filter first sets all values less than threshold to threshold and all values greater than maximum to maximum.

Next, this method includes only those features with (a) a range greater than beta1, and also (b) a ratio of maximum feature expression to minimum feature expression greater than beta2.

Value

An ExprsArray object.

tpq/exprso documentation built on July 27, 2019, 8:44 a.m.