ExpressionSet-compute: Numeric Computations on ExpressionSet objects

In renozao/xbioc: Extra Base Functions for Bioconductor

Description

The xbioc package defines some generics and methods to apply numeric transformations to ExpressionSet objects, which is convenient when working on gene expression deconvolution algorithms, where scale (log/linear) may matter.

log log-transforms the expression matrix of ExpressionSet objects.

Usage

## S4 method for signature 'ExpressionSet'
log(x, ...)

expb(x, ...)

## S4 method for signature 'numeric'
expb(x, base = exp(1))

## S4 method for signature 'matrix'
expb(x, base = exp(1))

## S4 method for signature 'ExpressionSet'
expb(x, ...)

## S4 method for signature 'ExpressionSet'
exp(x)

## S4 method for signature 'ExpressionSet'
range(x, ..., na.rm = FALSE)

## S3 method for class 'ExpressionSet'
quantile(x, ...)

Arguments

x	an ExpressionSet object.
...	extra arguments passed to subsequent calls, usually of the corresponding method in the stats package.
base	log base to use.
na.rm	logical that indicates if missing values should be omitted from the computation.

renozao/xbioc documentation built on Sept. 3, 2020, 1:13 a.m.