{ "_id": "6a365a4a3efcd9bda4404204", "Package": "pointcoral", "Title": "Local Point-Count Processing for Coral Photoquadrats", "Version": "0.1.0", "Authors@R": "person(\"Elvin\", \"Cordero\", email = \"elvin.cordero@seamountgeo.com\", role = c(\"aut\", \"cre\"))", "Description": "Imports Coral Point Count with Excel extensions (CPCe)\npoint-count annotations and related exported tables,\nstandardizes labels with a user-supplied crosswalk, creates\necological cover summaries, writes quality-control overlays,\nand exports machine-learning-ready point labels, image patches,\nsparse masks, and train/validation/test splits. The package is\nfully local and does not depend on third-party web platforms,\nuser accounts, or other closed services. CPCe methods are\ndescribed by Kohler and Gill (2006) \"Coral Point Count with\nExcel extensions (CPCe): A Visual Basic program for the\ndetermination of coral and substrate coverage using random\npoint count methodology\" .", "License": "MIT + file LICENSE", "URL": "https://github.com/el-cordero/pointcoral", "BugReports": "https://github.com/el-cordero/pointcoral/issues", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Config/pak/sysreqs": "cmake make libmagick++-dev gsfonts libicu-dev\nlibpng-dev libuv1-dev libssl-dev libx11-dev", "Repository": "https://el-cordero.r-universe.dev", "Date/Publication": "2026-06-12 10:34:33 UTC", "RemoteUrl": "https://github.com/el-cordero/pointcoral", "RemoteRef": "HEAD", "RemoteSha": "f0b8d7e5cd8ca8de90de9631f04fc0d07d00ba22", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-20 09:12:18 UTC", "User": "root" }, "Author": "Elvin Cordero [aut, cre]", "Maintainer": "Elvin Cordero ", "MD5sum": "bf55d9de41faea9ddfa478a470a59247", "_user": "el-cordero", "_type": "src", "_file": "pointcoral_0.1.0.tar.gz", "_fileid": "82a417b87ae63825e24038ab40da727c54be028b8bbf4825904eb20b6fd3151a", "_filesize": 2238496, "_sha256": "82a417b87ae63825e24038ab40da727c54be028b8bbf4825904eb20b6fd3151a", "_created": "2026-06-20T09:12:18.000Z", "_published": "2026-06-20T09:15:54.274Z", "_distro": "noble", "_jobs": [ { "job": 82471748470, "time": 164, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7764011555" }, { "job": 82471748471, "time": 181, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7764013777" }, { "job": 82471748499, "time": 184, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7764009971" }, { "job": 82471748475, "time": 178, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7764005798" }, { "job": 82471518112, "time": 227, "config": "source", 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}, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1", "role": "Depends" }, { "package": "cli", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "fs", "role": "Imports" }, { "package": "janitor", "role": "Imports" }, { "package": "magick", "role": "Imports" }, { "package": "png", "role": "Imports" }, { "package": "purrr", "role": "Imports" }, { "package": "readr", "role": "Imports" }, { "package": "readxl", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "stringr", "role": "Imports" }, { "package": "tibble", "role": "Imports" }, { "package": "devtools", "role": "Suggests" }, { "package": "glue", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "roxygen2", "role": "Suggests" }, { "package": "styler", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "tidyr", "role": "Suggests" }, { "package": "writexl", "role": "Suggests" } ], "_owner": "el-cordero", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-23", "n": 1 }, { "week": "2026-24", "n": 12 } ], "_tags": [], "_stars": 0, "_userbio": { "uuid": 33505811, "type": "user", "name": "el-cordero", "followers": 0 }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/pointcoral" }, "_devurl": "https://github.com/el-cordero/pointcoral", "_searchresults": 0, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/pointcoral.html", "extra/readme.html", "extra/readme.md", "LICENSE", "manual.pdf" ], "_homeurl": "https://github.com/el-cordero/pointcoral", "_realowner": "el-cordero", "_cranurl": true, "_releases": [ { "version": "0.1.0", "date": "2026-06-19" } ], "_exports": [ "check_crosswalk", "convert_cpce_coords", "export_coralnet_points", "export_segformer_sparse", "export_yolo_classification", "extract_point_patches", "make_class_lookup", "make_ml_points", "make_sparse_masks", "match_images", "plot_points_on_image", "qc_label_summary", "read_cpce_export", "read_cpce_file", "read_cpce_folder", "read_cpce_output_raw_tabs", "read_label_crosswalk", "run_pointcoral", "split_ml_points", "standardize_labels", "summarize_images", "summarize_points", "summarize_sites", "summarize_transects", "validate_points", "write_ml_points_csv", "write_pointcoral_dataset", "write_qc_overlays", "write_summary_tables" ], "_help": [ { "page": "check_crosswalk", "title": "Check a label crosswalk against point data", "topics": [ "check_crosswalk" ] }, { "page": "convert_cpce_coords", "title": "Convert CPCe coordinates to image pixel coordinates", "topics": [ "convert_cpce_coords" ] }, { "page": "export_coralnet_points", "title": "Export point labels in a simple CoralNet-style CSV", "topics": [ "export_coralnet_points" ] }, { "page": "export_segformer_sparse", "title": "Export SegFormer-style sparse masks", "topics": [ "export_segformer_sparse" ] }, { "page": "export_yolo_classification", "title": "Export YOLO-style classification patches", "topics": [ "export_yolo_classification" ] }, { "page": "extract_point_patches", "title": "Extract point-centered image patches", "topics": [ "extract_point_patches" ] }, { "page": "make_class_lookup", "title": "Make a class lookup table", "topics": [ "make_class_lookup" ] }, { "page": "make_ml_points", "title": "Make an ML-ready point-label table", "topics": [ "make_ml_points" ] }, { "page": "make_sparse_masks", "title": "Create sparse semantic segmentation masks from point labels", "topics": [ "make_sparse_masks" ] }, { "page": "match_images", "title": "Match CPCe point rows to image files", "topics": [ "match_images" ] }, { "page": "plot_points_on_image", "title": "Plot CPCe points on an image", "topics": [ "plot_points_on_image" ] }, { "page": "qc_label_summary", "title": "Summarize point-label QC issues", "topics": [ "qc_label_summary" ] }, { "page": "read_cpce_export", "title": "Read a CPCe CSV or Excel export", "topics": [ "read_cpce_export" ] }, { "page": "read_cpce_file", "title": "Read one CPCe '.cpc' file", "topics": [ "read_cpce_file" ] }, { "page": "read_cpce_folder", "title": "Read CPCe files and exports from a folder", "topics": [ "read_cpce_folder" ] }, { "page": "read_cpce_output_raw_tabs", "title": "Read _raw sheets from a CPCe output workbook", "topics": [ "read_cpce_output_raw_tabs" ] }, { "page": "read_label_crosswalk", "title": "Read a label crosswalk", "topics": [ "read_label_crosswalk" ] }, { "page": "run_pointcoral", "title": "Run the full pointcoral workflow from folders", "topics": [ "run_pointcoral" ] }, { "page": "split_ml_points", "title": "Split ML points into train/validation/test sets", "topics": [ "split_ml_points" ] }, { "page": "standardize_labels", "title": "Standardize CPCe labels with a crosswalk", "topics": [ "standardize_labels" ] }, { "page": "summarize_images", "title": "Summarize points at image level", "topics": [ "summarize_images" ] }, { "page": "summarize_points", "title": "Summarize point counts and percent cover", "topics": [ "summarize_points" ] }, { "page": "summarize_sites", "title": "Summarize points at site level", "topics": [ "summarize_sites" ] }, { "page": "summarize_transects", "title": "Summarize points at transect level", "topics": [ "summarize_transects" ] }, { "page": "validate_points", "title": "Validate a point table", "topics": [ "validate_points" ] }, { "page": "write_ml_points_csv", "title": "Write ML point CSV files", "topics": [ "write_ml_points_csv" ] }, { "page": "write_pointcoral_dataset", "title": "Write a complete pointcoral dataset from imported points", "topics": [ "write_pointcoral_dataset" ] }, { "page": "write_qc_overlays", "title": "Write QC overlays for point annotations", "topics": [ "write_qc_overlays" ] }, { "page": "write_summary_tables", "title": "Write ecological summary tables", "topics": [ "write_summary_tables" ] } ], "_pkglogo": "https://github.com/el-cordero/pointcoral/raw/HEAD/man/figures/logo.png", "_readme": "https://github.com/el-cordero/pointcoral/raw/HEAD/README.md", "_rundeps": [ "bit", "bit64", "cellranger", "cli", "clipr", "cpp11", "crayon", "curl", "dplyr", "fs", "generics", "glue", "hms", "janitor", "lifecycle", "lubridate", "magick", "magrittr", "pillar", "pkgconfig", "png", "prettyunits", "progress", "purrr", "R6", "Rcpp", "readr", "readxl", "rematch", "rlang", "snakecase", "stringi", "stringr", "tibble", "tidyr", "tidyselect", "timechange", "tzdb", "utf8", "vctrs", "vroom", "withr" ], "_vignettes": [ { "source": "pointcoral-workflow.Rmd", "filename": "pointcoral-workflow.html", "title": "pointcoral workflow", "engine": "knitr::rmarkdown", "headings": [ "1. Import CPCe data", "2. Match images", "3. Bare workflow from raw CPCe labels", "4. Optional: read a crosswalk table", "5. Optional: check unmapped labels", "6. Optional: apply label standardization", "7. Validate standardized points", "8. Create standardized ecological summary tables", "9. Create ML point-label CSVs", "10. Extract point patches", "11. Create sparse masks", "12. 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