Adjust Classifications in Manual Annotations

This function adjusts the classifications in manual annotation files based on a class2use file. It loads a specified class2use file and applies the adjustments to all relevant files in the specified manual folder. Optionally, it can also perform compression on the output files. This is the R equivalent function of start_mc_adjust_classes_user_training from the ifcb-analysis repository (Sosik and Olson 2007).

Usage

ifcb_adjust_classes(class2use_file, manual_folder, do_compression = TRUE)

Arguments

class2use_file: A character string representing the full path to the class2use file (should be a .mat file).
manual_folder: A character string representing the path to the folder containing manual annotation files. The function will look for files starting with 'D' in this folder.
do_compression: A logical value indicating whether to apply compression to the output files. Defaults to TRUE.

Value

None

Details

This function requires a python interpreter to be installed. The required python packages can be installed in a virtual environment using ifcb_py_install.

References

Sosik, H. M. and Olson, R. J. (2007), Automated taxonomic classification of phytoplankton sampled with imaging-in-flow cytometry. Limnol. Oceanogr: Methods 5, 204–216.

Examples

if (FALSE) { # \dontrun{
ifcb_adjust_classes("C:/training/config/class2use", "C:/training/manual/2014/")
} # }