EMSet-class: Expression and Metadata Set (EMSet)

In IMB-Computational-Genomics-Lab/ascend: ascend - Analysis of Single Cell Expression, Normalisation, and Differential expression

Description

An EMSet is a S4 class that stores data in a format 'ascend“ can easily work with for analysis.

Details

This iteration of the EMSet inherits from the SingleCellExperiment superclass for integration into Bioconductor.

'ascend'-specific slots are as follows:

Slots

colInfo

A data frame containing each cell identifier, its associated batch/sample and additional information such as conditions. This slot was called CellInformation in earlier versions of 'ascend'.

rowInfo

A data frame containing information a set of gene identifiers, such as gene symbols or ENSEMBL transcript identifiers. This data frame also holds information on controls and any information provided by the user. This slot was called GeneInformation in earlier versions of 'ascend'.

clusterAnalysis

Objects related to clustering - distance matrix and hclust object

log

A record of functions used on an EMSet.

Examples

# Load example EMSet from package
em_set <- ascend::raw_set

class(em_set)

IMB-Computational-Genomics-Lab/ascend documentation built on Aug. 29, 2019, 4:10 a.m.