{ "_id": "6acf48c4d9de2f3f33fca1b9", "Package": "soReta", "Title": "Ready-to-Analyze Datasets from Camera Trap Data", "Version": "0.1.0", "Authors@R": "person(\"Orlando\", \"Tomassini\", email = \"orlando.tomassini@gmail.com\", role = c(\"aut\", \"cre\"), \ncomment = c(ORCID = \"0000-0002-6963-0903\"))", "Description": "Functions to build datasets ready for statistical analysis\nfrom camera trap data: GLMM/GAMM on counts/RAI at various\ntemporal levels, group size, occupancy, kernel/circular\nanalysis of activity patterns, temporal interactions between\nspecies, hierarchical diel models, and classic\ncapture-mark-recapture. Input data must be formatted in the\nstyle produced by 'camtrapR', the standard convention in the\nfield.", "License": "GPL (>= 3)", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "Config/roxygen2/version": "8.1.0", "Config/testthat/edition": "3", "VignetteBuilder": "knitr", "LazyData": "true", "URL": "https://github.com/OrlandoTomassini/soReta", "BugReports": "https://github.com/OrlandoTomassini/soReta/issues", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://orlandotomassini.r-universe.dev", "Date/Publication": "2026-09-03 10:14:12 UTC", "RemoteUrl": "https://github.com/orlandotomassini/soreta", "RemoteRef": "HEAD", "RemoteSha": "6bbd1052a455db1919961239bc6a11d1797670ec", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-14 08:14:36 UTC", "User": "root" }, "Author": "Orlando Tomassini [aut, cre] (ORCID:\n)", "Maintainer": "Orlando Tomassini ", "_user": "orlandotomassini", "_type": "src", "_file": "soReta_0.1.0.tar.gz", "_fileid": 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"", "uuid": 321038614, "orcid": "0000-0002-6963-0903" }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1.0", "role": "Depends" }, { "package": "dplyr", "role": "Imports" }, { "package": "lubridate", "role": "Imports" }, { "package": "tidyr", "role": "Imports" }, { "package": "camtrapR", "role": "Suggests" }, { "package": "GLMMadaptive", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" } ], "_owner": "orlandotomassini", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-35", "n": 6 }, { "week": "2026-36", "n": 6 } ], "_tags": [ { "name": "v0.1.0", "date": "2026-08-25" }, { "name": "v0.1.1", "date": "2026-09-03" } ], "_stars": 0, "_contributors": [ { "user": "orlandotomassini", "count": 12, "uuid": 321038614 } ], "_userbio": { "uuid": 321038614, "type": "user", "name": "OrlandoTomassini", "followers": 0 }, "_downloads": { "count": 413, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/soReta" }, "_devurl": "https://github.com/orlandotomassini/soreta", "_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/soReta.html" ], "_homeurl": "https://github.com/orlandotomassini/soreta", "_realowner": "orlandotomassini", "_cranurl": true, "_releases": [ { "version": "0.1.0", "date": "2026-09-12" } ], "_exports": [ "as_capture_strings", "build_cmr_block", "build_cmr_day", "build_day_total", "build_diel_binomial_block", "build_diel_binomial_month", "build_diel_binomial_period", "build_group_day_total", "build_group_size_block", "build_group_size_day", "build_group_size_events", "build_group_size_month", "build_group_size_period", "build_group_size_total", "build_occupancy_block", "build_occupancy_day", "build_site_block", "build_site_day", "build_site_month", "build_site_period", "build_site_total", "build_species_pair_interruptions", "build_species_pair_intervals", "extract_radians", "radians_to_env" ], "_datasets": [ { "name": "camOp_soReta", "title": "Example camera effort matrix for soReta", "object": "camOp_soReta", "class": [ "camOp", "matrix", "array" ], "fields": [ "2026-01-01", "2026-01-02", "2026-01-03", "2026-01-04", "2026-01-05", "2026-01-06", "2026-01-07", "2026-01-08", "2026-01-09", "2026-01-10", "2026-01-11", "2026-01-12", "2026-01-13", "2026-01-14", "2026-01-15", "2026-01-16", "2026-01-17", "2026-01-18", "2026-01-19", "2026-01-20", "2026-01-21", "2026-01-22", "2026-01-23", "2026-01-24", "2026-01-25", "2026-01-26", "2026-01-27", "2026-01-28", "2026-01-29", "2026-01-30", "2026-01-31", "2026-02-01", "2026-02-02", "2026-02-03", "2026-02-04", "2026-02-05", "2026-02-06", "2026-02-07", "2026-02-08", "2026-02-09", "2026-02-10", "2026-02-11", "2026-02-12", "2026-02-13", "2026-02-14", "2026-02-15", "2026-02-16", "2026-02-17", "2026-02-18", "2026-02-19", "2026-02-20", "2026-02-21", "2026-02-22", "2026-02-23", "2026-02-24", "2026-02-25", "2026-02-26", "2026-02-27", "2026-02-28", "2026-03-01", "2026-03-02", "2026-03-03", "2026-03-04", "2026-03-05", "2026-03-06", "2026-03-07", "2026-03-08", "2026-03-09", "2026-03-10", "2026-03-11", "2026-03-12", "2026-03-13", "2026-03-14", "2026-03-15", "2026-03-16", "2026-03-17", "2026-03-18", "2026-03-19", "2026-03-20", "2026-03-21", "2026-03-22", "2026-03-23", "2026-03-24", "2026-03-25", "2026-03-26", "2026-03-27", "2026-03-28", "2026-03-29", "2026-03-30", "2026-03-31", "2026-04-01", "2026-04-02", "2026-04-03", "2026-04-04", "2026-04-05", "2026-04-06", "2026-04-07", "2026-04-08", "2026-04-09", "2026-04-10", "2026-04-11", "2026-04-12", "2026-04-13", "2026-04-14", "2026-04-15", "2026-04-16", "2026-04-17", "2026-04-18", "2026-04-19", "2026-04-20", "2026-04-21", "2026-04-22", "2026-04-23", "2026-04-24", "2026-04-25", "2026-04-26", "2026-04-27", "2026-04-28", "2026-04-29", "2026-04-30" ], "rows": 5, "table": true, "tojson": true }, { "name": "camtraps_soReta", "title": "Example station table for soReta", "object": "camtraps_soReta", "class": [ "data.frame" ], "fields": [ "Station", "Setup_date", "Retrieval_date", "Problem1_from", "Problem1_to", "Problem2_from", "Problem2_to" ], "rows": 5, "table": true, "tojson": true }, { "name": "recordTable_soReta", "title": "Example recordTable for soReta", "object": "recordTable_soReta", "class": [ "data.frame" ], "fields": [ "Station", "DateTimeOriginal", "Species", "N_individuals" ], "rows": 407, "table": true, "tojson": true }, { "name": "recordTableIndividuals_soReta", "title": "Example individually-identifiable recordTable for soReta", "object": "recordTableIndividuals_soReta", "class": [ "data.frame" ], "fields": [ "Station", "Species", "Individual", "DateTimeOriginal" ], "rows": 103, "table": true, "tojson": true } ], "_help": [ { "page": "as_capture_strings", "title": "Convert an individual x occasion table (or a list per species) into CMR capture-history strings", "topics": [ "as_capture_strings" ] }, { "page": "build_cmr_block", "title": "Build an N-day-block individual x block capture history (classic CMR)", "topics": [ "build_cmr_block" ] }, { "page": "build_cmr_day", "title": "Build a daily individual x day capture history (classic CMR)", "topics": [ "build_cmr_day" ] }, { "page": "build_day_total", "title": "Build a dataset with 1 row per calendar day, aggregating across all stations", "topics": [ "build_day_total" ] }, { "page": "build_diel_binomial_block", "title": "Build a binomial site x N-day-block x time-bin x species dataset", "topics": [ "build_diel_binomial_block" ] }, { "page": "build_diel_binomial_month", "title": "Build a binomial site x month x time-bin x species dataset", "topics": [ "build_diel_binomial_month" ] }, { "page": "build_diel_binomial_period", "title": "Build a binomial site x period/season x time-bin x species dataset", "topics": [ "build_diel_binomial_period" ] }, { "page": "build_diel_day", "title": "Build a non-aggregated, day-by-day site x day x time-bin x species dataset", "topics": [ "build_diel_day" ] }, { "page": "build_group_day_total", "title": "Build a dataset with 1 row per calendar day, with group size statistics across all stations", "topics": [ "build_group_day_total" ] }, { "page": "build_group_size_block", "title": "Build a site x N-day-block dataset with group size statistics per species", "topics": [ "build_group_size_block" ] }, { "page": "build_group_size_day", "title": "Build a site x day dataset with group size statistics per species", "topics": [ "build_group_size_day" ] }, { "page": "build_group_size_events", "title": "Build a dataset with 1 row per independent event, including group size", "topics": [ "build_group_size_events" ] }, { "page": "build_group_size_month", "title": "Build a site x month dataset with group size statistics per species", "topics": [ "build_group_size_month" ] }, { "page": "build_group_size_period", "title": "Build a site x period/season dataset with group size statistics per species", "topics": [ "build_group_size_period" ] }, { "page": "build_group_size_total", "title": "Build a dataset with 1 row per site, with group size statistics over the entire activity period", "topics": [ "build_group_size_total" ] }, { "page": "build_occupancy_block", "title": "Build, for each species, a site x N-day-block detection history", "topics": [ "build_occupancy_block" ] }, { "page": "build_occupancy_day", "title": "Build, for each species, a daily site x day detection history", "topics": [ "build_occupancy_day" ] }, { "page": "build_site_block", "title": "Build a site x N-day-block dataset with independent-event counts per species", "topics": [ "build_site_block" ] }, { "page": "build_site_day", "title": "Build a site x day dataset with independent-event counts per species", "topics": [ "build_site_day" ] }, { "page": "build_site_month", "title": "Build a site x month dataset with independent-event counts per species", "topics": [ "build_site_month" ] }, { "page": "build_site_period", "title": "Build a site x period/season dataset with independent-event counts per species", "topics": [ "build_site_period" ] }, { "page": "build_site_total", "title": "Build a dataset with 1 row per site, aggregating over the entire activity period", "topics": [ "build_site_total" ] }, { "page": "build_species_pair_interruptions", "title": "Compute the AA/ABA and BB/BAB intervals between two species (Parsons et al. 2016, T3/T4)", "topics": [ "build_species_pair_interruptions" ] }, { "page": "build_species_pair_intervals", "title": "Compute the AB/BA intervals between two species (Niedballa et al. 2019 method), with censoring", "topics": [ "build_species_pair_intervals" ] }, { "page": "camOp_soReta", "title": "Example camera effort matrix for soReta", "topics": [ "camOp_soReta" ] }, { "page": "camtraps_soReta", "title": "Example station table for soReta", "topics": [ "camtraps_soReta" ] }, { "page": "extract_radians", "title": "Extract, per species (and optionally per one or more groupings), a vector of times in radians", "topics": [ "extract_radians" ] }, { "page": "radians_to_env", "title": "Create a separate object in the environment for each vector in a nested list of radians", "topics": [ "radians_to_env" ] }, { "page": "recordTable_soReta", "title": "Example recordTable for soReta", "topics": [ "recordTable_soReta" ] }, { "page": "recordTableIndividuals_soReta", "title": "Example individually-identifiable recordTable for soReta", "topics": [ "recordTableIndividuals_soReta" ] } ], "_readme": "https://github.com/orlandotomassini/soreta/raw/HEAD/README.md", "_rundeps": [ "cli", "cpp11", "dplyr", "generics", "glue", "lifecycle", "lubridate", "magrittr", "pillar", "pkgconfig", "purrr", "R6", "rlang", "stringi", "stringr", "tibble", "tidyr", "tidyselect", "timechange", "utf8", "vctrs", "withr" ], "_vignettes": [ { "source": "soReta.Rmd", "filename": "soReta.html", "title": "Getting Started with soReta", "engine": "knitr::rmarkdown", "headings": [ "What soReta does", "1. GLMM/GAMM-ready datasets: the build_site_* and build_day_total family", "Choosing how events are grouped: independence_method and require_uninterrupted", "The rest of the build_site_* family", "2. Group size", "3. Occupancy detection histories", "4. Kernel density and circular activity analysis", "5. Temporal interactions between species", "6. Hierarchical diel activity models", "7. 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