slum-class: slum class

In RGLab/LumiR: Luminex multiplex array manipulation and analysis

Description

The class contains the summarized information for a Luminex xMap experiment. It contains the median fluorescence intensity for each well and analytes as well as information regarding the desing of the experiment.

Slots

phenoData

A AnnotatedDataFrame.Contains the information regarding the samples (e.g: sample_type, sample_name, well, filename, ...).

featureData

An AnnotatedDataFrame. Contains the information regarding the analytes: ID and name.

assayData

An environment with two identically dimensioned matrices with analytes as rownames and sample_id as colnames.

• exprs: The matrix of the MFI.

• concentration: The matrix of the concentrations calculated for the MFIs in exprs.

fit

A data.frame. Contains the information regarding the standard curve fitting: The values of the parameters to use in inv for each couple analyte / sample_id.

formula

A formula. The formula used for the standard curve fitting. By default a 5-Parameters Logistic.

inv

A function. The inverse function of the formula.

unit

A character, "MFI".

protocolData

An optional AnnotatedDataFrame, inherited from ExpressionSet.

experimentData

An optional MIAME, inherited from ExpressionSet.

Author(s)

Renan Sauteraud

See Also

slummarize, ExpressionSet, blum

RGLab/LumiR documentation built on May 8, 2019, 5:51 a.m.