Package index

Running the App

Functions for launching ClassiPyR

run_app()

Run the ClassiPyR Shiny Application

init_python_env()

Initialize Python environment for iRfcb

get_config_dir()

Get ClassiPyR configuration directory

get_settings_path()

Get path to settings file

Sample Loading

Functions for loading classifications and samples

load_class_list()

Load class list from MAT or TXT file

load_from_classifier_mat()

Load classifications from MATLAB classifier output file

load_from_csv()

Load classifications from CSV file (validation mode)

load_from_mat()

Load classifications from existing MAT annotation file

create_new_classifications()

Create new classifications for annotation mode

filter_to_extracted()

Filter classifications to only include extracted images

Sample Saving

Functions for saving annotations and exporting images

save_sample_annotations()

Save sample annotations to MAT and statistics files

save_validation_statistics()

Save validation statistics to CSV files

copy_images_to_class_folders()

Copy images to class-organized folders

Utilities

Helper functions for IFCB data processing

get_sample_paths()

Get sample paths from sample name

read_roi_dimensions()

Read ROI dimensions from ADC file

is_valid_sample_name()

Validate IFCB sample name format

sanitize_string()

Sanitize string for safe use in HTML/file paths

create_empty_changes_log()

Create empty changes log data frame