Package index

Import CPCe annotations and match images

Read supported CPCe files and tables, match images, and convert coordinates.

read_cpce_file()

Read one CPCe .cpc file

read_cpce_export()

Read a CPCe CSV or Excel export

read_cpce_output_raw_tabs()

Read _raw sheets from a CPCe output workbook

read_cpce_folder()

Read CPCe files and exports from a folder

match_images()

Match CPCe point rows to image files

convert_cpce_coords()

Convert CPCe coordinates to image pixel coordinates

Standardize labels and classes

Read, check, and apply project-specific label crosswalks.

read_label_crosswalk()

Read a label crosswalk

check_crosswalk()

Check a label crosswalk against point data

standardize_labels()

Standardize CPCe labels with a crosswalk

make_class_lookup()

Make a class lookup table

Validate and visually review points

Detect table problems and create image-based quality-control products.

validate_points()

Validate a point table

qc_label_summary()

Summarize point-label QC issues

plot_points_on_image()

Plot CPCe points on an image

write_qc_overlays()

Write QC overlays for point annotations

Calculate and write point-count summaries

Summarize observed point labels at image, transect, site, or custom levels.

summarize_points()

Summarize point counts and percent cover

summarize_images()

Summarize points at image level

summarize_transects()

Summarize points at transect level

summarize_sites()

Summarize points at site level

write_summary_tables()

Write ecological summary tables

Prepare machine-learning datasets

Split, export, crop, and encode point annotations for local downstream workflows.

split_ml_points()

Split ML points into train/validation/test sets

make_ml_points()

Make an ML-ready point-label table

write_ml_points_csv()

Write ML point CSV files

extract_point_patches()

Extract point-centered image patches

make_sparse_masks()

Create sparse semantic segmentation masks from point labels

export_coralnet_points()

Export point labels in a simple CoralNet-style CSV

export_yolo_classification()

Export YOLO-style classification patches

export_segformer_sparse()

Export SegFormer-style sparse masks

Run end-to-end workflows

Coordinate the common import, summary, QC, and export steps.

write_pointcoral_dataset()

Write a complete pointcoral dataset from imported points

run_pointcoral()

Run the full pointcoral workflow from folders

Package overview

pointcoral pointcoral-package

pointcoral: Point-Count Processing for Coral Photoquadrats