read_platemap_from_Incucyte_XML: Read plate maps from Incucyte plate map XML extract

In DavidQuigley/HTDoseResponseCurve: Dose Response Curve Evaluation from Incucyte and Other High-Throughput Platforms

Description

A Plate map describes the cell lines, treatment, and treatment concentrations applied to each well. This file is a text file in the XML format.

Usage

read_platemap_from_Incucyte_XML(path_to_file, attribute_value = "description",
  max_treatments_per_well = 1)

Arguments

path_to_file	The complete path to a plate map file.
attribute_value	The XML attribute to extract for treatment and sample names, one of "description", "displayName". Defaults to "description".
max_treatments_per_well	A number indicating the maximum number of treatments to expect in a single well. For single-treatment experiments, pass 1. For synergy experiments where two treatments may be combined in a single well, pass 2. Defaults to 1.

Value

A list of matrixes with the same dimension as the plate map. The matrixes are concentration, treatment, sample_type, seeding_density, and passage

Examples

pkg = "HTDoseResponseCurve"
fn_map = system.file("extdata", "sample_data_384_platemap.txt",package=pkg)
plate_map = read_platemap_from_Incucyte_XML( fn_map )

DavidQuigley/HTDoseResponseCurve documentation built on Jan. 23, 2021, 5:10 a.m.