ExperimentList-class: A container for multi-experiment data

Description Usage Arguments Details Methods (by generic) Examples

Description

The ExperimentList class is a container that builds on the SimpleList with additional checks for consistency in experiment names and length. It contains a SimpleList of experiments with sample identifiers. One element present per experiment performed.

Usage

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## S4 method for signature 'ExperimentList'
show(object)

## S4 method for signature 'ExperimentList'
dimnames(x)

## S4 method for signature 'ExperimentList'
mergeReplicates(x, replicates = list(),
  simplify = BiocGenerics::mean, ...)

## S4 method for signature 'ANY,missing'
assay(x, i, ...)

## S4 method for signature 'ExperimentList'
assays(x, ..., withDimnames = TRUE)

## S4 method for signature 'ExperimentList,missing'
assay(x, i, ...)

## S4 method for signature 'ExperimentList,numeric'
assay(x, i, ...)

## S4 method for signature 'ExperimentList,character'
assay(x, i, ...)

Arguments

object, x

An ExperimentList object

replicates

mergeReplicates: A list or LogicalList where each element represents a sample and a vector of repeated measurements for the sample

simplify

A function for merging columns where duplicates are indicated by replicates

...

Additional arguments. See details for more information.

i

A scalar character or integer index

withDimnames

logical (default TRUE) whether to return dimension names

Details

Convert from SimpleList or list to the multi-experiment data container. When using the mergeReplicates method, additional arguments are passed to the given simplify function argument (e.g., na.rm = TRUE)

Methods (by generic)

Examples

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vjcitn/MultiAssayExperiment documentation built on Dec. 30, 2017, 4:33 a.m.