sink_spmx: Import cell sinking data from Molecular Devices Spectramax EM...
In mlrioux/sinkworx: Import, Model, and Plot Cell Sinking Data

Description Usage Arguments Value Examples

Transforms sinking data from plate format into tidy format. Works on .txt output from Spectramax EM plate reader.

1 2	sink_spmx(data_folder, catalog = NA, time_units = "sec", RFU_cutoff = 2, skip = 3, export_output = FALSE, save_as = "Sink_Database.csv" )

`data_folder`	folder containing the data files to be read, in quotations. Should be in the working directory.
`catalog`	optional dataframe containing experimental metadata that can be merged with the imported data files. Should include a "Plate" column containing the filename, and "Well" in format A1, A2, etc.
`time_units`	units of time in which measurements were taken (either "sec", "min", or "hr").
`RFU_cutoff`	threshold for RFU values to be kept.
`skip`	lines to be skipped when reading raw data files; should be sufficient to skip headers/blank lines.
`export_output`	whether the resulting dataframe should be exported to .csv.
`save_as`	desired filename, if results are to be exported.

A single dataframe containing tidied data from all files in data_folder, as well as experimental metadata if catalog is supplied. Creates the columns "Well", "Elapsed.Time.m", "RFU", and "Plate" (filename without extension).

sink_spmx("Spectramax data", culture_catalog, time_units = "min", RFU_cutoff = 7, save_as = "Sinking.csv")

sinking_data <- sink_spmx("Spectramax data", export_output = FALSE)

sinking_data <- sink_spmx("Spectramax data", culture_catalog, save_as = "Sinking_Data.csv")