{ "_id": "6ad1eb29d3c80a766859c714", "Package": "pointcoral", "Title": "Local Point-Count Processing for Coral Photoquadrats", "Version": "0.1.0", "Authors@R": "person(\"Elvin\", \"Cordero\", email = \"elvin.cordero@seamountgeo.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0009-0003-8025-283X\"))", "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://el-cordero.github.io/pointcoral/,\nhttps://github.com/el-cordero/pointcoral", "BugReports": "https://github.com/el-cordero/pointcoral/issues", "Encoding": "UTF-8", "Language": "en-US", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Config/Needs/website": "pkgdown", "Config/Needs/coverage": "covr", "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": "2026-07-18 15:33:47 UTC", "RemoteUrl": "https://github.com/el-cordero/pointcoral", "RemoteRef": "HEAD", "RemoteSha": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-16 08:14:57 UTC", "User": "root" }, "Author": "Elvin Cordero [aut, cre] (ORCID:\n)", "Maintainer": "Elvin Cordero ", "_user": "el-cordero", "_type": "src", "_file": "pointcoral_0.1.0.tar.gz", "_fileid": "https://r2.ropensci.org/eb0b4d32a90ffa97b11a89c84bb0841bfcff8e859807971f894de696552810f3", "_filesize": 2316139, "_sha256": "eb0b4d32a90ffa97b11a89c84bb0841bfcff8e859807971f894de696552810f3", "_expires": "2027-01-24T09:15:19.000Z", "_created": "2026-10-16T08:14:57.000Z", "_published": "2026-10-16T09:15:21.614Z", "_buildurl": "https://github.com/r-universe/el-cordero/actions/runs/38871984475", "_status": "success", "_host": "GitHub-Actions", "_jobs": [ { "job": 116879533461, "time": 164, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "12034240912" }, { "job": 116879533356, "time": 169, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "12034395752" }, { "job": 116879533442, "time": 105, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "12036881597" }, { "job": 116879533240, "time": 123, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "12036612082" }, { "job": 116878148237, "time": 229, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "12033534589" }, { "job": 116879533166, "time": 144, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "12034555334" }, { "job": 116879533174, "time": 120, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "12034011069" }, { "job": 116879533338, "time": 92, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "12033781531" }, { "job": 116879533320, "time": 109, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "12033816405" } ], "_upstream": "https://github.com/el-cordero/pointcoral", "_commit": { "id": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "author": "Elvin Cordero ", "committer": "Elvin Cordero ", "message": "Build comprehensive pkgdown website\n", "time": 1784388827 }, "_maintainer": { "name": "Elvin Cordero", "email": "elvin.cordero@seamountgeo.com", "orcid": "0009-0003-8025-283X" }, "_distro": "resolute", "_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 }, { "week": "2026-29", "n": 1 } ], "_tags": [], "_stars": 1, "_userbio": { "uuid": 33505811, "type": "user", "name": "el-cordero", "followers": 1 }, "_downloads": { "count": 326, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/pointcoral" }, "_devurl": "https://github.com/el-cordero/pointcoral", "_pkgdown": "https://el-cordero.github.io/pointcoral/", "_searchresults": 0, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt", "extra/pointcoral.html", "extra/readme.html", "extra/readme.md", "LICENSE" ], "_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": "Get started with pointcoral", "engine": "knitr::rmarkdown", "headings": [ "Understand the bundled example", "1. Import and match images", "Coordinate requirement", "2. Validate the imported points", "3. Summarize the original CPCe labels", "4. Review and apply a project crosswalk", "5. Calculate standardized cover summaries", "6. Create and inspect a QC overlay", "7. Prepare leakage-aware ML point labels", "8. Understand patches and sparse masks", "9. Run the complete writer", "Before using project results" ], "created": "2026-06-07 18:51:51", "modified": "2026-07-18 15:33:47", "commits": 3 } ], "_score": 4.176091259055681, "_indexed": true, "_nocasepkg": "pointcoral", "_universes": [ "el-cordero" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.0", "date": "2026-10-16T08:17:27.000Z", "distro": "resolute", "commit": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "fileid": "https://r2.ropensci.org/e81bd9574c65aea54ea733a96ff0f824c7e876ab80ca5770cfc818c7f08569ec", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/el-cordero/actions/runs/38871984475" }, { "r": "4.6.1", "os": "linux", "version": "0.1.0", "date": "2026-10-16T08:17:29.000Z", "distro": "resolute", "commit": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "fileid": "https://r2.ropensci.org/e23c146573b28dd3537a128fafa21f01c9ee96729226e007b3fb5e5160d0376e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/el-cordero/actions/runs/38871984475" }, { "r": "4.5.3", "os": "mac", "version": "0.1.0", "date": "2026-10-16T09:14:32.000Z", "commit": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "fileid": "https://r2.ropensci.org/7dbd9125556ccfd967df21656fd5cc641b6d53c0eff0d493298306455206eeb4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/el-cordero/actions/runs/38871984475" }, { "r": "4.6.1", "os": "mac", "version": "0.1.0", "date": "2026-10-16T09:11:52.000Z", "commit": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "fileid": "https://r2.ropensci.org/6e4fb8bedd8f3bd7b5bfa42285ee546b69902d28589eec56805caa2d47ed56e1", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/el-cordero/actions/runs/38871984475" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.0", "date": "2026-10-16T08:17:37.000Z", "commit": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "fileid": "https://r2.ropensci.org/e2cb3a82472b004239c0abf07414611f91a784ae26459636dd6a1b9ceb73fc6e", "status": "success", "buildurl": "https://github.com/r-universe/el-cordero/actions/runs/38871984475" }, { "r": "4.7.0", "os": "win", "version": "0.1.0", "date": "2026-10-16T08:16:31.000Z", "commit": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "fileid": "https://r2.ropensci.org/4da6b3c23a6c6460bacae105accd5952682f7961e75997df3831bfe597970e5a", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/el-cordero/actions/runs/38871984475" }, { "r": "4.5.3", "os": "win", "version": "0.1.0", "date": "2026-10-16T08:16:11.000Z", "commit": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "fileid": "https://r2.ropensci.org/49c2e9a57861052d762990d885925511593ffeb866803dfb7bf90f4b2d01e909", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/el-cordero/actions/runs/38871984475" }, { "r": "4.6.1", "os": "win", "version": "0.1.0", "date": "2026-10-16T08:16:21.000Z", "commit": "946314cb14f9ca3aa87a02ddf576540a8761b36c", "fileid": "https://r2.ropensci.org/1e98cfd78768ff72fe50f8f47c0345779c787ef826c98004881ba43cbf1f2c29", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/el-cordero/actions/runs/38871984475" } ] }