{ "_id": "69df472fc5259ad4cd8df5ce", "Package": "ohun", "Title": "Optimizing Acoustic Signal Detection", "Version": "1.0.4", "Maintainer": "Marcelo Araya-Salas ", "Description": "Facilitates the automatic detection of acoustic signals,\nproviding functions to diagnose and optimize the performance of\ndetection routines. Detections from other software can also be\nexplored and optimized. This package has been peer-reviewed by\nrOpenSci. Araya-Salas et al. (2022)\n.", "License": "GPL (>= 2)", "Encoding": "UTF-8", "URL": "https://docs.ropensci.org/ohun/, https://github.com/ropensci/ohun/", "BugReports": "https://github.com/ropensci/ohun/issues/", "VignetteBuilder": "knitr", "RoxygenNote": "7.3.2", "Language": "en-US", "Authors@R": "c(person(\"Marcelo\", \"Araya-Salas\",\nrole = c(\"aut\", \"cre\"),\nemail = \"marcelo.araya@ucr.ac.cr\",\ncomment = c(ORCID = \"0000-0003-3594-619X\")),\nperson(given = \"Alec L.\",\nfamily = \"Robitaille\",\nrole = \"rev\",\nemail = \"robit.alec@gmail.com\",\ncomment = c(ORCID = \"0000-0002-4706-1762\")),\nperson(given = \"Sam\",\nfamily = \"Lapp\",\nrole = \"rev\",\nemail = \"sammlapp@gmail.com\",\ncomment = c(ORCID = \"0000-0003-1637-6822\")))", "Config/pak/sysreqs": "libabsl-dev cmake libfftw3-dev libgdal-dev gdal-bin\nlibgeos-dev libglpk-dev make libicu-dev libsndfile1-dev\nlibuv1-dev libxml2-dev libssl-dev libproj-dev libsqlite3-dev\nlibudunits2-dev", "Repository": "https://ropensci.r-universe.dev", "Date/Publication": "2025-10-30 14:50:28 UTC", "RemoteUrl": "https://github.com/ropensci/ohun", "RemoteRef": "master", "RemoteSha": "98d3c46aba0c89dc7ec2b414956246c900008e34", "NeedsCompilation": "no", "Packaged": { "Date": "2026-04-15 08:02:51 UTC", "User": "root" }, "Author": "Marcelo Araya-Salas [aut, cre] (ORCID:\n),\nAlec L. Robitaille [rev] (ORCID:\n),\nSam Lapp [rev] (ORCID: )", "MD5sum": "30ff1961c9931b9ab6980436395e0866", "_user": "ropensci", "_type": "src", "_file": "ohun_1.0.4.tar.gz", "_fileid": "0cedb3ed800eb5d319d10bed14321418fd19a448dd8a3fa0bb0bd58eeb63eb1b", "_filesize": 4210202, "_sha256": "0cedb3ed800eb5d319d10bed14321418fd19a448dd8a3fa0bb0bd58eeb63eb1b", "_created": "2026-04-15T08:02:51.000Z", "_published": "2026-04-15T08:07:10.971Z", "_distro": "noble", "_jobs": [ { "job": 71413527997, "time": 213, "config": "linux-devel-x86_64", "r": "4.6.0", "check": "OK", "artifact": "6445776919" }, { "job": 71413527985, "time": 174, "config": "linux-release-x86_64", "r": "4.5.3", "check": "OK", "artifact": "6445766857" }, { "job": 71413528008, "time": 69, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "FAIL", "artifact": "" }, { "job": 71413527986, "time": 149, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "6445760098" }, { "job": 71412882361, "time": 273, "config": "pkgdown", "r": "4.5.2", "check": "OK", "artifact": "6445714695" }, { "job": 71412882358, "time": 289, "config": "source", "r": "4.5.3", "check": "OK", "artifact": "6445719176" }, { "job": 71413528000, "time": 160, "config": "wasm-release", "r": "4.5.1", "check": "OK", "artifact": "6445762392" }, { "job": 71413528048, "time": 138, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "6445757136" }, { "job": 71413528005, "time": 155, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "6445761540" }, { "job": 71413528042, "time": 135, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "6445756055" } ], "_buildurl": "https://github.com/r-universe/ropensci/actions/runs/24443157309", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/ropensci/ohun", "_commit": { "id": "98d3c46aba0c89dc7ec2b414956246c900008e34", "author": "Marcelo ", "committer": "Marcelo ", "message": "rename internal function\n", "time": 1761835828 }, "_maintainer": { "name": "Marcelo Araya-Salas", "email": "marcelo.araya@ucr.ac.cr", "login": "marce10", "uuid": 13245502, "orcid": "0000-0003-3594-619X" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.2.1", "role": "Depends" }, { "package": "tuneR", "role": "Imports" }, { "package": "warbleR", "version": ">= 1.1.32", "role": "Imports" }, { "package": "cli", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "seewave", "version": ">= 2.0.1", "role": "Imports" }, { "package": "fftw", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "sf", "role": "Imports" }, { "package": "igraph", "role": "Imports" }, { "package": "checkmate", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" }, { "package": "viridis", "role": "Suggests" }, { "package": "Sim.DiffProc", "role": "Suggests" }, { "package": "vdiffr", "role": "Suggests" } ], "_owner": "ropensci", "_selfowned": true, "_usedby": 1, "_updates": [ { "week": "2025-30", "n": 14 }, { "week": "2025-31", "n": 2 }, { "week": "2025-44", "n": 3 } ], "_tags": [], "_topics": [ "audio-processing", "bioacoustics", "sound-event-detection", "spectrogram", "streamline-analysis" ], "_stars": 18, "_contributors": [ { "user": "marce10", "count": 288, "uuid": 13245502 }, { "user": "robitalec", "count": 44, "uuid": 16324625 } ], "_userbio": { "uuid": 1200269, "type": "organization", "name": "rOpenSci", "description": "Tools and R Packages for Open Science" }, "_downloads": { "count": 384, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/ohun" }, "_devurl": "https://github.com/ropensci/ohun", "_pkgdown": "https://docs.ropensci.org/ohun/", "_searchresults": 50, "_metadata": { "review": { "id": 568, "status": "reviewed", "version": "0.1.0", "organization": "rOpenSci Software Review", "url": "https://github.com/ropensci/software-review/issues/568" }, "ropensci_category": "data-extraction" }, "_rbuild": "4.5.3", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/ohun.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/ropensci/ohun", "_realowner": "ropensci", "_cranurl": true, "_releases": [ { "version": "0.1.0", "date": "2022-12-19" }, { "version": "1.0.0", "date": "2023-09-24" }, { "version": "1.0.1", "date": "2023-11-17" }, { "version": "1.0.2", "date": "2024-08-19" }, { "version": "1.0.3", "date": "2025-07-22" }, { "version": "1.0.4", "date": "2025-10-22" } ], "_exports": [ "consensus_detection", "diagnose_detection", "energy_detector", "feature_acoustic_data", "feature_reference", "filter_detection", "get_envelopes", "get_templates", "label_detection", "label_spectro", "merge_overlaps", "optimize_energy_detector", "optimize_template_detector", "plot_detection", "reassemble_detection", "split_acoustic_data", "summarize_acoustic_data", "summarize_diagnostic", "summarize_reference", "template_correlator", "template_detector" ], "_datasets": [ { "name": "lbh_reference", "title": "Example data frame of a selection table including all sound events of interests", "object": "lbh_reference", "file": "lbh_reference.rda", "class": [ "selection_table", "data.frame" ], "fields": [ "sound.files", "selec", "start", "end", "bottom.freq", "top.freq" ], "rows": 19, "table": true, "tojson": true }, { "name": "lbh1", "title": "Long-billed hermit recording", "object": "lbh1", "file": "lbh1.rda", "class": [ "Wave" ], "fields": [], "table": false, "tojson": false }, { "name": "lbh2", "title": "Long-billed hermit recording", "object": "lbh2", "file": "lbh2.rda", "class": [ "Wave" ], "fields": [], "table": false, "tojson": false } ], "_help": [ { "page": "consensus_detection", "title": "Remove ambiguous detections", "topics": [ "consensus_detection" ] }, { "page": "diagnose_detection", "title": "Evaluate the performance of a sound event detection procedure", "topics": [ "diagnose_detection" ] }, { "page": "energy_detector", "title": "Detects the start and end of sound events", "topics": [ "energy_detector" ] }, { "page": "get_envelopes", "title": "Extract absolute amplitude envelopes", "topics": [ "get_envelopes" ] }, { "page": "get_templates", "title": "Find templates representative of the structural variation of sound events", "topics": [ "get_templates" ] }, { "page": "label_detection", "title": "Label detections from a sound event detection procedure", "topics": [ "label_detection" ] }, { "page": "label_spectro", "title": "Plot a labeled spectrogram", "topics": [ "label_spectro" ] }, { "page": "lbh_reference", "title": "Example data frame of a selection table including all sound events of interests", "topics": [ "lbh_reference" ] }, { "page": "lbh1", "title": "Long-billed hermit recording", "topics": [ "lbh1" ] }, { "page": "lbh2", "title": "Long-billed hermit recording", "topics": [ "lbh2" ] }, { "page": "merge_overlaps", "title": "Merge overlapping selections", "topics": [ "merge_overlaps" ] }, { "page": "optimize_energy_detector", "title": "Optimize energy-based sound event detection", "topics": [ "optimize_energy_detector" ] }, { "page": "optimize_template_detector", "title": "Optimize acoustic template detection", "topics": [ "optimize_template_detector" ] }, { "page": "plot_detection", "title": "Plot detection and reference annotations", "topics": [ "plot_detection" ] }, { "page": "reassemble_detection", "title": "Reassemble detections from clips", "topics": [ "reassemble_detection" ] }, { "page": "split_acoustic_data", "title": "Splits sound files and associated annotations", "concept": [ "data manipulation" ], "topics": [ "split_acoustic_data" ] }, { "page": "summarize_acoustic_data", "title": "Summarize information about file format in an acoustic data set", "topics": [ "summarize_acoustic_data" ] }, { "page": "summarize_diagnostic", "title": "Summarize detection diagnostics", "topics": [ "summarize_diagnostic" ] }, { "page": "summarize_reference", "title": "Summarize temporal and frequency dimensions of annotations and gaps", "topics": [ "summarize_reference" ] }, { "page": "template_correlator", "title": "Acoustic templates correlator using time-frequency cross-correlation", "topics": [ "template_correlator" ] }, { "page": "template_detector", "title": "Acoustic template detection from time-frequency cross-correlations", "topics": [ "template_detector" ] } ], "_readme": "https://github.com/ropensci/ohun/raw/master/README.md", "_rundeps": [ "askpass", "backports", "base64enc", "bioacoustics", "bitops", "brio", "callr", "checkmate", "class", "classInt", "cli", "cpp11", "crayon", "curl", "DBI", "desc", "diffobj", "digest", "dtw", "e1071", "evaluate", "farver", "fastmap", "fftw", "fs", "ggplot2", "glue", "gtable", "highr", "htmltools", "httr", "igraph", "isoband", "jsonlite", "KernSmooth", "knitr", "labeling", "lattice", "lifecycle", "magrittr", "MASS", "Matrix", "mime", "moments", "monitoR", "NatureSounds", "openssl", "pbapply", "pkgbuild", "pkgconfig", "pkgload", "praise", "processx", "proxy", "ps", "R6", "RColorBrewer", "Rcpp", "RCurl", "rjson", "rlang", "rprojroot", "s2", "S7", "scales", "seewave", "sf", "signal", "stringi", "stringr", "sys", "testthat", "tuneR", "units", "vctrs", "viridisLite", "waldo", "warbleR", "withr", "wk", "xfun", "yaml" ], "_vignettes": [ { "source": "intro_to_ohun.Rmd", "filename": "intro_to_ohun.html", "title": "Optimizing sound event detection", "author": "Marcelo Araya-Salas, PhD", "engine": "knitr::rmarkdown", "headings": [ "Automatic sound event detection", "Signal detection theory applied to bioacoustics", "Improving detection speed", "Additional tips", "References" ], "created": "2023-06-09 00:18:51", "modified": "2025-07-22 00:07:11", "commits": 9 }, { "source": "template_based_detection.Rmd", "filename": "template_based_detection.html", "title": "Template-based detection", "author": "Marcelo Araya-Salas, PhD", "engine": "knitr::rmarkdown", "headings": [ "Optimizing template-based detection", "Detecting several templates", "References" ], "created": "2023-06-05 21:24:42", "modified": "2025-07-22 00:07:11", "commits": 10 }, { "source": "energy_based_detection.Rmd", "filename": "energy_based_detection.html", "title": "Energy-based detection", "author": "Marcelo Araya-Salas, PhD", "engine": "knitr::rmarkdown", "headings": [ "How it works", "Optimizing energy-based detection", "References" ], "created": "2023-06-05 21:24:42", "modified": "2025-07-22 00:07:11", "commits": 10 } ], "_score": 7.084576277934331, "_indexed": true, "_nocasepkg": "ohun", "_universes": [ "ropensci", "marce10" ], "_binaries": [ { "r": "4.5.3", "os": "mac", "version": "1.0.4", "date": "2026-03-16T09:17:21.000Z", "commit": "98d3c46aba0c89dc7ec2b414956246c900008e34", "fileid": "a279c9c25319cd157be2596ce3292796c435df6782ed15446a24d7a8343d946c", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/23136060215" }, { "r": "4.6.0", "os": "linux", "version": "1.0.4", "date": "2026-04-15T08:05:37.000Z", "distro": "noble", "commit": "98d3c46aba0c89dc7ec2b414956246c900008e34", "fileid": "8232c5ba877b3e80b59444f3ccbf779161816f7f7f8604730e30a21d662d18e2", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24443157309" }, { "r": "4.5.3", "os": "linux", "version": "1.0.4", "date": "2026-04-15T08:05:12.000Z", "distro": "noble", "commit": "98d3c46aba0c89dc7ec2b414956246c900008e34", "fileid": "a0ee06d960ea9aebb6d1bbb79c5ed8a062b675e841807b5a2ddd1bfb6c92f29d", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24443157309" }, { "r": "4.6.0", "os": "mac", "version": "1.0.4", "date": "2026-04-15T08:04:48.000Z", "commit": "98d3c46aba0c89dc7ec2b414956246c900008e34", "fileid": "1fd2580865bd8d7e98ea3f26079b72f40f19563dc0655641a74582c2c443996a", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24443157309" }, { "r": "4.5.1", "os": "wasm", "version": "1.0.4", "date": "2026-04-15T08:05:48.000Z", "commit": "98d3c46aba0c89dc7ec2b414956246c900008e34", "fileid": "f88ba2346d3c83bd177bf05779ca64f661a02e1465c73d6fb4f84413adb2dddc", "status": "success", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24443157309" }, { "r": "4.7.0", "os": "win", "version": "1.0.4", "date": "2026-04-15T08:04:19.000Z", "commit": "98d3c46aba0c89dc7ec2b414956246c900008e34", "fileid": "74dd2b3090a6c7b4c9a3b06077ee70f92873e5308598f2ba8dd52d5c49c2d39d", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24443157309" }, { "r": "4.5.3", "os": "win", "version": "1.0.4", "date": "2026-04-15T08:04:39.000Z", "commit": "98d3c46aba0c89dc7ec2b414956246c900008e34", "fileid": "af46b3eeb289c1c0d18c2514672c458f2c3511a92b4a1cf39197c9d12bd796fd", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24443157309" }, { "r": "4.6.0", "os": "win", "version": "1.0.4", "date": "2026-04-15T08:04:15.000Z", "commit": "98d3c46aba0c89dc7ec2b414956246c900008e34", "fileid": "533b665366d07bb907097c2de81f05561c17694d85955253f2b2ebfbc341c138", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/24443157309" } ] }