read_moldev: Parser for Molecular Devices scope output

In hemoshear/assayr2: Tools for analyzing assay data

Description

Extracts meta information from table headers and combines individual scope aquisition tables into a single unified data frame.

Usage

read_moldev(file, measurements = NULL, verbose = TRUE,
  plate_capture = ".*Plate ?(\\d*|\\d*b).*", ...)

Arguments

file	A valid path to a .txt or .xlsx file with Molecular Devices scope output.
measurements	Default is NULL, which will auto-detect measurements present and messsage the user in terminal. Alternativly, provide a character vector of regex ready (special characters must be escaped) patterns and only matching measurements will be returned.
verbose	Boolean, should information about parsed columns be printed to the console?
plate_capture	Character, regex capture expression to grab plate identifier from the field "Acquisition Name [Plate Info]". Default grabs digits followed by optional "b". The gsub() call this feeds into is case insensitive.
...	Arguments passed to read_generic()

Value

A data frame with columns for run, plate, well, site and measurments.

Warning

This function will not work with a file = $BoxFileID, due to rio::import()'s behavior which is baked into boxr. So file must be a local path.

Examples

moldev_smaa <- system.file("extdata", "SMAA_Moldev_example.txt", package = "assayr2")
smaa <- read_moldev(moldev_smaa)

moldev_nilered <- system.file("extdata", "NileRed_Moldev_example.txt", package = "assayr2")
nilered <- read_moldev(moldev_nilered)

hemoshear/assayr2 documentation built on Nov. 8, 2019, 6:13 p.m.