{ "_id": "6a4e9fb421b18e15484fe8e1", "Package": "LakeMetabolizer", "Title": "Tools for the Analysis of Ecosystem Metabolism", "Maintainer": "Jacob Zwart ", "Version": "1.5.6", "Authors@R": "c(person(\"Luke\", \"Winslow\", role = c(\"aut\"),\nemail = \"lawinslow@gmail.com\"),\nperson(\"Jacob\", \"Zwart\", role = c(\"cre\", \"aut\"),\nemail = \"jayzlimno@gmail.com\",\ncomment = c(ORCID = \"0000-0002-3870-405X\")),\nperson(\"Ryan\", \"Batt\", role = \"aut\"),\nperson(\"Jessica\", \"Corman\", role = \"aut\"),\nperson(\"Hilary\", \"Dugan\", role = \"aut\"),\nperson(\"Paul\", \"Hanson\", role = \"aut\"),\nperson(\"Aline\", \"Jaimes\", role = \"aut\"),\nperson(\"Jordan\", \"Read\", role = \"aut\"),\nperson(\"Richard\", \"Woolway\", role = \"aut\"))", "Description": "A collection of tools for the calculation of freewater\nmetabolism from in situ time series of dissolved oxygen, water\ntemperature, and, optionally, additional environmental\nvariables. LakeMetabolizer implements 5 different metabolism\nmodels with diverse statistical underpinnings: bookkeeping,\nordinary least squares, maximum likelihood, Kalman filter, and\nBayesian. Each of these 5 metabolism models can be combined\nwith 1 of 7 models for computing the coefficient of gas\nexchange across the air–water interface (k). LakeMetabolizer\nalso features a variety of supporting functions that compute\nconversions and implement calculations commonly applied to raw\ndata prior to estimating metabolism (e.g., oxygen saturation\nand optical conversion models).", "License": "GPL (>= 2)", "BugReports": "https://github.com/GLEON/LakeMetabolizer/issues", "URL": "https://www.tandfonline.com/doi/abs/10.1080/IW-6.4.883", "RoxygenNote": "7.3.3", "Encoding": "UTF-8", "Repository": "https://gleon.r-universe.dev", "Date/Publication": "2026-07-08 17:39:43 UTC", "RemoteUrl": "https://github.com/gleon/lakemetabolizer", "RemoteRef": "HEAD", "RemoteSha": "bc849303954860ab1c7967305b529764ee9137ce", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-07-08 19:00:54 UTC", "User": "root" }, "Author": "Luke Winslow [aut],\nJacob Zwart [cre, aut] (ORCID: ),\nRyan Batt [aut],\nJessica Corman [aut],\nHilary Dugan [aut],\nPaul Hanson [aut],\nAline Jaimes [aut],\nJordan Read [aut],\nRichard Woolway [aut]", "_user": "gleon", 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"GitHub-Actions", "_buildurl": "https://github.com/r-universe/gleon/actions/runs/28968016585", "_status": "success", "_upstream": "https://github.com/gleon/lakemetabolizer", "_commit": { "id": "bc849303954860ab1c7967305b529764ee9137ce", "author": "Jake Zwart ", "committer": "GitHub ", "message": "Merge pull request #153 from bmcafee/main\n\nAdd k.klaus", "time": 1783532383 }, "_maintainer": { "name": "Jacob Zwart", "email": "jayzlimno@gmail.com", "login": "jzwart", "orcid": "0000-0002-3870-405X", "description": "Senior Research Data Scientist; \nCurrently, 99% of my work is in GitLab https://code.usgs.gov/jzwart", "uuid": 4825431 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.15.0", "role": "Depends" }, { "package": "rLakeAnalyzer", "version": ">= 1.4", "role": "Depends" }, { "package": "plyr", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "R2jags", "role": "Suggests" }, { "package": "testthat", 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"topics": [ "get.vars" ] }, { "page": "getSchmidt", "title": "Returns Schmidt number for a specific gas at a given temperature", "topics": [ "getSchmidt" ] }, { "page": "has.vars", "title": "tests data.frame for column names", "topics": [ "has.vars" ] }, { "page": "is.day", "title": "determines if measurement was taken during the daytime", "topics": [ "is.day" ] }, { "page": "is.night", "title": "determines if measurement was taken during the night", "topics": [ "is.night" ] }, { "page": "k.read", "title": "Returns a timeseries of gas exchange velocity", "topics": [ "k.cole", "k.crusius", "k.heiskanen", "k.klaus", "k.macIntyre", "k.read", "k.read.soloviev", "k.vachon" ] }, { "page": "k.read.base", "title": "Returns a timeseries of gas exchange velocity", "topics": [ "k.cole.base", "k.crusius.base", "k.heiskanen.base", "k.klaus.base", "k.macIntyre.base", "k.read.base", "k.read.soloviev.base", "k.vachon.base" ] }, { "page": "k600.2.kGAS", "title": "Returns the gas exchange velocity for gas of interest w/ no unit conversions", "topics": [ "k600.2.kGAS", "k600.2.kGAS.base" ] }, { "page": "load.all.data", "title": "Attemps to load and merge all timeseries data for a given site name", "topics": [ "load.all.data" ] }, { "page": "load.meta", "title": "Loads a metadata file from the specified path", "topics": [ "load.meta" ] }, { "page": "metab", "title": "Calculate metabolism", "topics": [ "metab" ] }, { "page": "metab.bayesian", "title": "Metabolism model based on a bayesian parameter estimation framework", "topics": [ "metab.bayesian" ] }, { "page": "metab.bookkeep", "title": "Metabolism model based on simple day/night summation NEP-interpreted changes in DO.", "topics": [ "metab.bookkeep" ] }, { "page": "metab.kalman", "title": "Metabolism calculated from parameters estimated using a Kalman filter", "topics": [ "metab.kalman" ] }, { "page": "metab.mle", "title": "Metabolism calculated from the maximum likelihood estimates of the parameters in a standard linear regression model", "topics": [ "metab.mle" ] }, { "page": "metab.ols", "title": "Metabolism model based on a ordinary least squares parameter estimation framework.", "topics": [ "metab.ols" ] }, { "page": "o2.at.sat", "title": "Calculates the equilibrium saturation concentration of oxygen in water at the supplied conditions", "topics": [ "o2.at.sat", "o2.at.sat.base" ] }, { "page": "par.to.sw", "title": "Convert PAR to shortwave", "topics": [ "par.to.sw", "par.to.sw.base" ] }, { "page": "rmv.vars", "title": "subsets data.frame according to header names", "topics": [ "rmv.vars" ] }, { "page": "sun.rise.set", "title": "Calculates the time of sunrise and sunset", "topics": [ "sun.rise.set" ] }, { "page": "sw.to.par", "title": "Convert shortwave radiation to PAR", "topics": [ "sw.to.par", "sw.to.par.base" ] }, { "page": "temp.kalman", "title": "Smooth temperature time series using a Kalman filter/ smoother", "topics": [ "temp.kalman" ] }, { "page": "var.indx", "title": "finds matching 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