IncucyteExperiment: The IncucyteExperiment Class

In steveped/incucyteR: Process Incucyte Growth Curve Data

Description

The IncucyteExperiment Class

Usage

IncucyteExperiment(f, map, autoGroup = TRUE, valueSep = "/")

Arguments

f	A vector or list of file paths containing the observed Incuvyte data
map	File path to the PlateMap file
autoGroup	logical. If TRUE treatment groups will be automatically created from any PlateMap annotations. Ignored if not PlateMap is provided
valueSep	Text separator when combining values across treatment groups

Details

The IncucyteExperiment class extends the S4 SummarizedExperiment class.

As these experiments are time courses, rowData will contain the time information in POSIXct format, along with the Elapsed time from t0. A final column will contain the Elapsed time scaled to be on [0,1]. This aids with model convergence during GLMM fitting

If a PlateMap file is supplied, metadata from this will be incorporated into the colData element, otherwise colData will simply contain well IDs.

Additionally if a PlateMap file is provided, the metadata element will contain the complete well information, including empty wells.

steveped/incucyteR documentation built on Sept. 7, 2020, 12:22 p.m.