{ "_id": "6a267f3d794753ddbc3f04fb", "Package": "AquaticLifeHistory", "Type": "Package", "Title": "Life History Analysis Tools", "Version": "1.0.6", "Date": "2026-01-09", "Authors@R": "person(\"Jonathan\", \"Smart\", \nemail = \"jonsmartphd@gmail.com\",\nrole = c(\"aut\", \"cre\", \"ctb\"),\ncomment = c(ORCID = \"0000-0003-2070-3208\"))", "Maintainer": "Jonathan Smart ", "Description": "Estimate aquatic species life history using robust\ntechniques. This package supports users undertaking two types\nof analysis: 1) Growth from length-at-age data, and 2) maturity\nanalyses for length and/or age data. Maturity analyses are\nperformed using generalised linear model approaches\nincorporating either a binomial or quasibinomial distribution.\nGrowth modelling is performed using the multimodel approach\npresented by Smart et al. (2016) \"Multimodel approaches in\nshark and ray growth studies: strengths, weaknesses and the\nfuture\" .", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.2.3", "License": "GPL-3", "VignetteBuilder": "knitr", "URL": "https://github.com/jonathansmart/AquaticLifeHistory,\nhttps://jonathansmart.github.io/AquaticLifeHistory/", "BugReports": "https://github.com/jonathansmart/AquaticLifeHistory/issues", "Config/pak/sysreqs": "libicu-dev libxml2-dev libx11-dev", "Repository": "https://jonathansmart.r-universe.dev", "Date/Publication": "2026-01-09 06:36:36 UTC", "RemoteUrl": "https://github.com/jonathansmart/aquaticlifehistory", "RemoteRef": "HEAD", "RemoteSha": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-08 08:31:54 UTC", "User": "root" }, "Author": "Jonathan Smart [aut, cre, ctb] (ORCID:\n)", "MD5sum": "3d4dac3180939e7120a48a1f3884a314", "_user": "jonathansmart", "_type": "src", "_file": "AquaticLifeHistory_1.0.6.tar.gz", "_fileid": "9f4bd923de77973a536490f3070aa9a65d8ef413171d8d6560e45e84f470b0d2", "_filesize": 1862846, "_sha256": "9f4bd923de77973a536490f3070aa9a65d8ef413171d8d6560e45e84f470b0d2", "_created": "2026-06-08T08:31:54.000Z", "_published": "2026-06-08T08:37:17.886Z", "_distro": "noble", "_jobs": [ { "job": 80053001700, "time": 166, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7475154746" }, { "job": 80053001515, "time": 161, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7475153303" }, { "job": 80053001646, "time": 283, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7475176607" }, { "job": 80053001553, "time": 216, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7475158088" }, { "job": 80052281372, "time": 242, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7475095078" }, { "job": 80053001508, "time": 120, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7475138484" }, { "job": 80053001535, "time": 111, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7475135132" }, { "job": 80053001640, "time": 120, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7475138559" }, { "job": 80053001716, "time": 125, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7475140277" } ], "_buildurl": "https://github.com/r-universe/jonathansmart/actions/runs/27125296778", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/jonathansmart/aquaticlifehistory", "_commit": { "id": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "author": "Jonathan Smart ", "committer": "Jonathan Smart ", "message": "Date fixed for CRAN submission\n", "time": 1767940596 }, "_maintainer": { "name": "Jonathan Smart", "email": "jonsmartphd@gmail.com", "login": "jonathansmart", "description": "", "uuid": 20293486, "orcid": "0000-0003-2070-3208" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.3", "role": "Depends" }, { "package": "plyr", "role": "Imports" }, { "package": "MASS", "role": "Imports" }, { "package": "readr", "role": "Imports" }, { "package": "broom", "role": "Imports" }, { "package": "MuMIn", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": "rlist", "role": "Imports" }, { "package": "minpack.lm", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "tidyr", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "jonathansmart", "_selfowned": true, "_usedby": 1, "_updates": [ { "week": "2025-27", "n": 1 }, { "week": "2026-02", "n": 5 } ], "_tags": [ { "name": "v1.0.6", "date": "2026-01-08" } ], "_stars": 8, "_contributors": [ { "user": "davisvaughan", "count": 1, "uuid": 19150088 }, { "user": "jonathansmart", "count": 1, "uuid": 20293486 }, { "user": "olivroy", "count": 1, "uuid": 52606734 } ], "_userbio": { "uuid": 20293486, "type": "user", "name": "Jonathan Smart" }, "_downloads": { "count": 256, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/AquaticLifeHistory" }, "_devurl": "https://github.com/jonathansmart/aquaticlifehistory", "_pkgdown": "https://jonathansmart.github.io/AquaticLifeHistory/", "_searchresults": 22, "_rbuild": "4.6.0", "_assets": [ "extra/AquaticLifeHistory.html", "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/jonathansmart/aquaticlifehistory", "_realowner": "jonathansmart", "_cranurl": true, "_releases": [ { "version": "1.0.5", "date": "2023-11-17" }, { "version": "1.0.6", "date": "2026-01-10" } ], "_exports": [ "Calculate_MMI", "Estimate_Age_Maturity", "Estimate_Growth", "Estimate_Len_Maturity" ], "_datasets": [ { "name": "growth_data", "title": "Length-at-age data for blacktip sharks", "object": "growth_data", "class": [ "data.frame" ], "fields": [ "Age", "Length", "Sex" ], "rows": 294, "table": true, "tojson": true }, { "name": "maturity_data", "title": "Age and length-at-maturity data for silky sharks", "object": "maturity_data", "class": [ "data.frame" ], "fields": [ "Tag", "Age", "Length", "Maturity" ], "rows": 248, "table": true, "tojson": true } ], "_help": [ { "page": "AquaticLifeHistory", "title": "Introduction to AquaticLifeHistory", "topics": [ "AquaticLifeHistory" ] }, { "page": "boot_data", "title": "boot_data", "topics": [ "boot_data" ] }, { "page": "Calculate_MMI", "title": "Calculate model averaged length-at-age estimates and parameters", "topics": [ "Calculate_MMI" ] }, { "page": "Estimate_Age_Maturity", "title": "Estimate age-at-maturity", "topics": [ "Estimate_Age_Maturity" ] }, { "page": "Estimate_Growth", "title": "Estimate length-at-age parameters and growth curves for Elasmobranchs", "topics": [ "Estimate_Growth" ] }, { "page": "Estimate_Len_Maturity", "title": "Estimate length-at-maturity", "topics": [ "Estimate_Len_Maturity" ] }, { "page": "growth_data", "title": "Length-at-age data for blacktip sharks", "topics": [ "growth_data" ] }, { "page": "maturity_data", "title": "Age and length-at-maturity data for silky sharks", "topics": [ "maturity_data" ] } ], "_readme": "https://github.com/jonathansmart/aquaticlifehistory/raw/HEAD/README.md", "_rundeps": [ "backports", "bit", "bit64", "broom", "cli", "clipr", "cpp11", "crayon", "data.table", "dplyr", "farver", "generics", "ggplot2", "glue", "gtable", "hms", "insight", "isoband", "jsonlite", "labeling", "lattice", "lifecycle", "magrittr", "MASS", "Matrix", "minpack.lm", "MuMIn", "nlme", "pillar", "pkgconfig", "plyr", "prettyunits", "progress", "purrr", "R6", "RColorBrewer", "Rcpp", "readr", "rlang", "rlist", "S7", "scales", "stringi", "stringr", "tibble", "tidyr", "tidyselect", "tzdb", "utf8", "vctrs", "viridisLite", "vroom", "withr", "XML", "yaml" ], "_vignettes": [ { "source": "Growth_estimation.Rmd", "filename": "Growth_estimation.html", "title": "Growth estimation example using the AquaticLifeHistory package", "author": "Jonathan Smart", "engine": "knitr::rmarkdown", "headings": [ "Citation", "Introduction", "Multi-model growth analysis with Estimate_Growth()", "Input data", "Example applications", "Fitting specific models", "Plot alterations", "Returning length-at-age estimates", "Model averaged results with Calculate_MMI", "Sex specific growth curves", "Combining two and three parameter models", "Correlation matrices" ], "created": "2019-11-24 06:45:45", "modified": "2023-11-13 07:06:34", "commits": 4 }, { "source": "Maturity_analyses.Rmd", "filename": "Maturity_analyses.html", "title": "Maturity estimation for aquatic species through the AquaticLifeHistory package", "author": "Jonathan Smart", "engine": "knitr::rmarkdown", "headings": [ "Citation", "Introduction", "Input data", "Using Estimate_Age_Maturity", "Binomial model", "Quasibinomial (binned) model", "Using Estimate_Len_Maturity", "Retrieving logistic model estimates" ], "created": "2019-11-24 06:45:45", "modified": "2023-11-13 07:06:34", "commits": 4 } ], "_score": 6.324693913861775, "_indexed": true, "_nocasepkg": "aquaticlifehistory", "_universes": [ "jonathansmart" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0.6", "date": "2026-06-08T08:34:11.000Z", "distro": "noble", "commit": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "fileid": "b124634f8f8d4373259f059c43f5f8a37b42edd6bef464b1f2e6f06e650ee659", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/jonathansmart/actions/runs/27125296778" }, { "r": "4.6.0", "os": "linux", "version": "1.0.6", "date": "2026-06-08T08:34:08.000Z", "distro": "noble", "commit": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "fileid": "cc7be8a0f677ce834c7c924709ca804672f2baefd37c132ae0fbb0797b8c47fd", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/jonathansmart/actions/runs/27125296778" }, { "r": "4.5.3", "os": "mac", "version": "1.0.6", "date": "2026-06-08T08:35:16.000Z", "commit": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "fileid": "282d6128bd4e12bdf45db1adab0a4339b06129e9948465a8467647479d9f7bb2", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/jonathansmart/actions/runs/27125296778" }, { "r": "4.6.0", "os": "mac", "version": "1.0.6", "date": "2026-06-08T08:34:18.000Z", "commit": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "fileid": "5e0f059561408684de48f7b54c921fed27122cf5f3b3a3cd514bc45b651d7363", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/jonathansmart/actions/runs/27125296778" }, { "r": "4.6.0", "os": "wasm", "version": "1.0.6", "date": "2026-06-08T08:34:14.000Z", "commit": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "fileid": "aea4023333778eb6673420e08135d0eb3b7246ddaf3fed6fbd036889c4b71091", "status": "success", "buildurl": "https://github.com/r-universe/jonathansmart/actions/runs/27125296778" }, { "r": "4.7.0", "os": "win", "version": "1.0.6", "date": "2026-06-08T08:33:13.000Z", "commit": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "fileid": "fe56ce9a4fdedbc1704fefeb9b1b29b1072db67e58e13ae2cecdce2eca6b66fe", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/jonathansmart/actions/runs/27125296778" }, { "r": "4.5.3", "os": "win", "version": "1.0.6", "date": "2026-06-08T08:33:23.000Z", "commit": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "fileid": "771a3176e47038b0c76ba79b58753c5e796c84bffd9c05edfd1b56016f4cd00e", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/jonathansmart/actions/runs/27125296778" }, { "r": "4.6.0", "os": "win", "version": "1.0.6", "date": "2026-06-08T08:33:21.000Z", "commit": "c9dbcba0295a6ef58f34ea037a4728d1a8b1d308", "fileid": "a3794e2e94a8572ee50b98123e097e0f33d577af2fb62760621765fd5783afaa", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/jonathansmart/actions/runs/27125296778" } ] }