TargetExperimentList-initialize: TargetExperimentList object constructor.

In gamerino/TarSeqQC: TARgeted SEQuencing Experiment Quality Control

Description

initialize creates the TargetExperimentList object containing the experiment results of several targeted sequencing experiments carried out using a unique bed file.

Usage

## S4 method for signature 'TargetExperimentList'
initialize(.Object, TEList, feature = NULL,
    attribute = "coverage")

Arguments

.Object	TargetExperimentList class.
TEList	List containing all the TargetExperiment objects corresponding to the experiments that will be compared.
feature	Character indicating the name of the feature that will be explored (e.g 'amplicon', 'exon', 'gene').
attribute	Character indicating the name of the attribute that will be explored. Should be 'coverage' or 'medianCounts'.

Value

TargetExperimentList object.

Note

see full example in TargetExperimentList-class

Author(s)

Gabriela A. Merino [e-mail], Cristobal Fresno [e-mail], Yanina Murua [e-mail], Andrea S. Llera [e-mail] and Elmer A. Fernandez [e-mail]

See Also

TargetExperimentList

Other TargetExperimentList: TargetExperimentList-class, TargetExperimentList, object

Examples

# Defining the set of TargetExperiment objects
data(ampliPanel, package="TarSeqQC")
data(ampliPanel2, package="TarSeqQC")
ampliList<-list(ampliPanel, ampliPanel2)
# Defining feature parameter
feature<-"amplicon"
# Defining attribute parameter
attribute<-"coverage"
##Calling the constructor
object<-TargetExperimentList(TEList=ampliList, attribute=attribute,
    feature=feature)

gamerino/TarSeqQC documentation built on Feb. 3, 2020, 9:19 p.m.