{ "_id": "6ac925c4de46216d5edda229", "Package": "SyncER", "Title": "Synchronicity Testing for Event Records", "Version": "1.0.0", "Authors@R": "person(\"Katleen\", \"Wils\", email = \"katleen.wils@ugent.be\",\nrole = c(\"aut\", \"cre\"))", "Description": "Evaluation of synchronous deposition across different\nevent records using a log-ratio approach, and syncing age-depth\nmodels based on the availability of isochrons. Following the\nmethodology of Wils & Ramisch (2026)\n. The synthetic example dataset\nused in the examples, tests and vignette is distributed\nseparately in the companion data package 'SyncERdata'.", "License": "GPL (>= 3)", "URL": "https://github.com/katleenwils/SyncER", "BugReports": "https://github.com/katleenwils/SyncER/issues", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "Config/testthat/edition": "3", "Config/roxygen2/version": "8.0.0", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "libicu-dev libx11-dev", "Repository": "https://katleenwils.r-universe.dev", "Date/Publication": "2026-09-28 22:21:57 UTC", "RemoteUrl": "https://github.com/katleenwils/syncer", "RemoteRef": "HEAD", "RemoteSha": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-09 16:57:21 UTC", "User": "root" }, "Author": "Katleen Wils [aut, cre]", "Maintainer": "Katleen Wils ", "_user": "katleenwils", "_type": "src", "_file": "SyncER_1.0.0.tar.gz", "_fileid": "https://r2.ropensci.org/0e69940ba0c8cd289ee8f9d13dffecb87b59a28a3ad05821d74c8629c6d74eb7", "_filesize": 9798944, "_sha256": "0e69940ba0c8cd289ee8f9d13dffecb87b59a28a3ad05821d74c8629c6d74eb7", "_expires": "2027-01-17T17:34:58.000Z", "_created": "2026-10-09T16:57:21.000Z", "_published": "2026-10-09T17:35:00.710Z", "_buildurl": "https://github.com/r-universe/katleenwils/actions/runs/37962168050", "_status": "success", "_host": "GitHub-Actions", "_jobs": [ { "job": 113929808764, "time": 145, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11632686821" }, { "job": 113929809639, "time": 141, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11632861509" }, { "job": 113929808930, "time": 196, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "11634136985" }, { "job": 113929808977, "time": 191, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "11633605988" }, { "job": 113927608311, "time": 327, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11632791335" }, { "job": 113929808817, "time": 116, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11632407078" }, { "job": 113929808855, "time": 115, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "11631507945" }, { "job": 113929808929, "time": 83, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "11632651494" }, { "job": 113929808897, "time": 78, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "11632147092" } ], "_upstream": "https://github.com/katleenwils/syncer", "_commit": { "id": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "author": "Katleen ", "committer": "Katleen ", "message": "Update for CRAN submission\n", "time": 1790634117 }, "_maintainer": { "name": "Katleen Wils", "email": "katleen.wils@ugent.be", "login": "katleenwils", "description": "", "uuid": 19281510 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "dplyr", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": "stringr", "role": "Imports" }, { "package": "readr", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "pracma", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "rbacon", "role": "Suggests" }, { "package": "rplum", "role": "Suggests" }, { "package": "SyncERdata", "version": ">= 1.0.0", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" } ], "_owner": "katleenwils", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-27", "n": 1 }, { "week": "2026-29", "n": 15 }, { "week": "2026-33", "n": 13 }, { "week": "2026-34", "n": 1 }, { "week": "2026-35", "n": 4 }, { "week": "2026-36", "n": 7 }, { "week": "2026-38", "n": 3 }, { "week": "2026-40", "n": 1 } ], "_tags": [ { "name": "v0", "date": "2026-08-13" }, { "name": "v1.0.0", "date": "2026-09-28" } ], "_stars": 0, "_contributors": [ { "user": "katleenwils", "count": 52, "uuid": 19281510 } ], "_userbio": { "uuid": 19281510, "type": "user", "name": "katleenwils", "followers": 0 }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/SyncER" }, "_devurl": "https://github.com/katleenwils/syncer", "_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/readme.html", "extra/readme.md", "extra/SyncER.html" ], "_homeurl": "https://github.com/katleenwils/syncer", "_realowner": "katleenwils", "_cranurl": true, "_releases": [ { "version": "1.0.0", "date": "2026-10-08" } ], "_exports": [ "age_model_input", "assign_nonsynchro_age", "bayesian_age_combination", "bp_datum", "build_age_input", "compute_event_ages", "compute_isochron_thresholds", "compute_overall_synchronicity", "compute_synchronicity_values", "compute_synchronized_ages", "load_event_ages", "load_horizon_names", "plot_bayesian_age_combination", "plot_pairwise_synchronicity_evaluation", "plot_synchronicity_evaluation", "print_validation_summary", "process_event_ages", "read_age_data", "read_age_model_output", "read_record_data", "syncer_setup", "synchronize_ages", "verify_synchronicity", "write_age_output_data" ], "_help": [ { "page": "age_model_input", "title": "Write input files for age-depth modelling and return the updated record metadata", "topics": [ "age_model_input" ] }, { "page": "assign_nonsynchro_age", "title": "Assign ages to non-synchronous horizons to use as older/younger than inputs", "topics": [ "assign_nonsynchro_age" ] }, { "page": "bayesian_age_combination", "title": "Bayesian combination of age probabilty density functions", "topics": [ "bayesian_age_combination" ] }, { "page": "bp_datum", "title": "Determine current BP datum (year - 1950)", "topics": [ "bp_datum" ] }, { "page": "build_age_input", "title": "Build input data structures compatible with Bacon and Plum age-depth modelling", "topics": [ "build_age_input" ] }, { "page": "compute_event_ages", "title": "Interpolate event ages from MCMC runs of Raw Bacon/Plum output files", "topics": [ "compute_event_ages" ] }, { "page": "compute_isochron_thresholds", "title": "Calculate synchronicity validation thresholds based on isochron ages and errors", "topics": [ "compute_isochron_thresholds" ] }, { "page": "compute_overall_synchronicity", "title": "Calculate overall synchronicity score using additive log-ratios", "topics": [ "compute_overall_synchronicity" ] }, { "page": "compute_synchronicity_values", "title": "Compute synchronicity score and precision for considered event deposits", "topics": [ "compute_synchronicity_values" ] }, { "page": "compute_synchronized_ages", "title": "Compute synchronized ages", "topics": [ "compute_synchronized_ages" ] }, { "page": "load_event_ages", "title": "Load and store event ages from Bacon/Plum output files", "topics": [ "load_event_ages" ] }, { "page": "load_horizon_names", "title": "Derive event-type variables from a defined horizon group", "topics": [ "load_horizon_names" ] }, { "page": "plot_bayesian_age_combination", "title": "Plot Bayesian age combination results", "topics": [ "plot_bayesian_age_combination" ] }, { "page": "plot_pairwise_synchronicity_evaluation", "title": "Create synchronicity evaluation plots per pairwise comparison of records", "topics": [ "plot_pairwise_synchronicity_evaluation" ] }, { "page": "plot_synchronicity_evaluation", "title": "Plot synchronicity evaluation plots per horizon across all records", "topics": [ "plot_synchronicity_evaluation" ] }, { "page": "print_validation_summary", "title": "Print summary of isochron-based validation thresholds", "topics": [ "print_validation_summary" ] }, { "page": "process_event_ages", "title": "Prepare age data for log-ratio transformation and calculate basic statistics", "topics": [ "process_event_ages" ] }, { "page": "read_age_data", "title": "Read age results of age-depth modelling for each of the event horizons", "topics": [ "read_age_data" ] }, { "page": "read_age_model_output", "title": "Read Bacon/Plum age-depth modelling output files", "topics": [ "read_age_model_output" ] }, { "page": "read_record_data", "title": "Load age input data and event depths", "topics": [ "read_record_data" ] }, { "page": "syncer_setup", "title": "Set up SyncER working directory and output folder", "topics": [ "syncer_setup" ] }, { "page": "synchronize_ages", "title": "Computes synchronized ages and plots Bayesian age combinations if used", "topics": [ "synchronize_ages" ] }, { "page": "verify_synchronicity", "title": "Write and plot synchronicity testing results for evaluation", "topics": [ "verify_synchronicity" ] }, { "page": "write_age_output_data", "title": "Write age data (including event ages) into CSV files", "topics": [ "write_age_output_data" ] } ], "_readme": "https://github.com/katleenwils/syncer/raw/HEAD/README.md", "_rundeps": [ "bit", "bit64", "cli", "clipr", "cpp11", "crayon", "dplyr", "farver", "generics", "ggplot2", "glue", "gtable", "hms", "isoband", "labeling", "lifecycle", "magrittr", "pillar", "pkgconfig", "pracma", "prettyunits", "progress", "R6", "RColorBrewer", "readr", "rlang", "S7", "scales", "stringi", "stringr", "tibble", "tidyselect", "tzdb", "utf8", "vctrs", "viridisLite", "vroom", "withr" ], "_vignettes": [ { "source": "workflow.Rmd", "filename": "workflow.html", "title": "SyncER Workflow", "engine": "knitr::rmarkdown", "headings": [ "Step 0: Load and set-up SyncER example data", "Step 1: Set up the SyncER workflow", "Step 2: Age-depth modelling", "Step 3: Evaluate synchronicity of isochrons", "Step 4: Set age difference of isochrons to zero", "Step 5: Create new precise age-depth models", "Step 6: Evaluate synchronicity", "Step 7: Iteratively improve age model precision" ], "created": "2026-07-14 04:36:16", "modified": "2026-09-28 22:21:57", "commits": 11 } ], "_score": 4.6020599913279625, "_indexed": true, "_nocasepkg": "syncer", "_universes": [ "katleenwils" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.0", "date": "2026-10-09T16:59:50.000Z", "distro": "resolute", "commit": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "fileid": "https://r2.ropensci.org/ce2a28015890b68b4b61706954137cb56da409f48146675524b9d26c6a6b0ba8", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/katleenwils/actions/runs/37962168050" }, { "r": "4.6.1", "os": "linux", "version": "1.0.0", "date": "2026-10-09T16:59:46.000Z", "distro": "resolute", "commit": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "fileid": "https://r2.ropensci.org/0d7e4de214da48f83adfdfc9925c87c5a999cc3e3eedb1a495ea80d9b53514fd", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/katleenwils/actions/runs/37962168050" }, { "r": "4.5.3", "os": "mac", "version": "1.0.0", "date": "2026-10-09T17:33:43.000Z", "commit": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "fileid": "https://r2.ropensci.org/fd0bf745c0e8afdd7a2bda53ed37e7ff8daaba61e101f3e34d85e8b506976528", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/katleenwils/actions/runs/37962168050" }, { "r": "4.6.1", "os": "mac", "version": "1.0.0", "date": "2026-10-09T17:22:52.000Z", "commit": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "fileid": "https://r2.ropensci.org/49d66fa3e8eee94d46ad507b0924238e1a8c39f3ec6340b3b26992f844f1b1e8", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/katleenwils/actions/runs/37962168050" }, { "r": "4.6.0", "os": "wasm", "version": "1.0.0", "date": "2026-10-09T16:59:40.000Z", "commit": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "fileid": "https://r2.ropensci.org/23f8f2dacdebe7dfc38129f2b9c36de834b5eb6a6d7ca7274460a91922f929d3", "status": "success", "buildurl": "https://github.com/r-universe/katleenwils/actions/runs/37962168050" }, { "r": "4.7.0", "os": "win", "version": "1.0.0", "date": "2026-10-09T16:59:13.000Z", "commit": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "fileid": "https://r2.ropensci.org/65e76fc634d6bbcadcb8f9ef43428f958eb71d8ed70d1b6a2d8be1db6909fca2", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/katleenwils/actions/runs/37962168050" }, { "r": "4.5.3", "os": "win", "version": "1.0.0", "date": "2026-10-09T16:58:46.000Z", "commit": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "fileid": "https://r2.ropensci.org/52efd59e2b033bbee0eae8ac3ca46edf353ac8158811af2734563a4c2504b73c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/katleenwils/actions/runs/37962168050" }, { "r": "4.6.1", "os": "win", "version": "1.0.0", "date": "2026-10-09T16:58:40.000Z", "commit": "971faa7e9fb408d2549c87faebbcb46ad416cd6e", "fileid": "https://r2.ropensci.org/7f39806b5e35c740c3ae7ceb6aafce4f618807e1b929a847ec8378479f1709fe", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/katleenwils/actions/runs/37962168050" } ] }