add_concentration |
Add concentration metadata |
add_treatment |
Add treatment metadata |
apply_sign_test |
Apply sign test |
apply_validation_method |
Check validity of each cell in data frame. |
ask_concentration_list |
Add concentration metadata |
ask_experiment_list |
Generate list of experiment names from user parameters |
ask_group_list |
Generate list of group IDs from user parameters |
ask_invalid_samples |
Check validity of each cell in data frame. |
ask_threshold |
Check validity of each cell in data frame. |
ask_treatment_list |
Add treatment metadata |
ask_validity_method |
Check validity of each cell in data frame. |
bma |
Absorption values from six broth microdilution assays conducted on 96-well plates |
calculate_growth_performance |
Calculate and visualize growth performance |
calculate_percentage_change |
Calculate and visualize growth performance |
check_monotonicity |
Check monotonicity of well positions across groups |
check_well_positions |
Check monotonicity of well positions across groups |
generate_concentration_list |
Add concentration metadata |
generate_experiment_list |
Generate list of experiment names from user parameters |
generate_group_list |
Generate list of group IDs from user parameters |
generate_treatment_list |
Add treatment metadata |
match_concentration |
Add concentration metadata |
match_treatment |
Add treatment metadata |
plot_growth_performance |
Calculate and visualize growth performance |
read_plate |
Read multiple text files from photometer measurement |
read_plates |
Read multiple text files from photometer measurement |
subtract_T0 |
Subtract timepoint T0 and remove from data |
summarise_growth_performance |
Calculate and visualize growth performance |
summarize_growth_performance |
Calculate and visualize growth performance |
tidy_plates |
Add metadata to values from photometer measurements |
tidy_plates_via_params |
Tidy multiple 96-well plates via parameters |
tidy_plates_via_prompts |
Read raw photometry data and add meta data based on user input |
tidy_single_plate |
Tidy single 96-well plate via parameters |
update_validity |
Check validity of each cell in data frame. |
validate_cells |
Check validity of each cell in data frame. |