LakeMetabolizer

1.5.6

Tools for the Analysis of Ecosystem Metabolism

0packages depend

5.7Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Jacob ZwartFirst published 2014-08-117 releasesCRAN page ↗GitHub ↗

A collection of tools for the calculation of freewater metabolism from in situ time series of dissolved oxygen, water temperature, and, optionally, additional environmental variables. LakeMetabolizer implements 5 different metabolism models with diverse statistical underpinnings: bookkeeping, ordinary least squares, maximum likelihood, Kalman filter, and Bayesian. Each of these 5 metabolism models can be combined with 1 of 7 models for computing the coefficient of gas exchange across the air–water interface (k). LakeMetabolizer also features a variety of supporting functions that compute conversions and implement calculations commonly applied to raw data prior to estimating metabolism (e.g., oxygen saturation and optical conversion models).

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("LakeMetabolizer", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("GLEON/LakeMetabolizer")

Development version from GLEON/LakeMetabolizer. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-lakemetabolizer

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-LakeMetabolizer

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-LakeMetabolizer

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 1.8 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.01

not tracked

Coverage

100%

Documentation · exports

None

Vignettes

README

Dependencies · direct

Check history

OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Downloads

5.7K

CRAN downloads in the past year

Rank #9,932 · ~16/day · ~477/mo

LakeMetabolizer Releases R versions

Daily download trend is not available in this view yet.

44630 days

1.1K90 days

5.7K1 year

Compare downloads with other packages →

Also on420 r2u24 autocran

Repository

GitHub ↗ gleon/lakemetabolizer

20Stars

13Forks

18Open issues

1Open PRs

4Releases

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (2)

R >= 2.15.0rLakeAnalyzer

Imports (2)

plyrmethods

LinkingTo (0)

none

Suggests (2)

R2jags testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 4,391 (70%)Rd 1,707 (27%)C 154 (2%)

Code characteristics

Cyclomatic complexity: 2.0 median / 15 max
Test cases: 1 / 0.01 per code line
Documented parameters: 99%

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

76 46 exported

Complexity

3.4 avg / 15 max

Call network

76 nodes / 89 edges

Test coverage has not been measured for this package yet; nodes fall back to a neutral fill.

Call graph

Open call graph →

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Lowest coverage

Per-function coverage is not measured for this package yet.

People & History

People (9)

Maintainer (1)

Jacob Zwart

Maintainer, Author

Authors (9)

Maintainer, Author

Author

Author

Author

Author

Author

Author

Author

Author

Release timeline

7 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.5.6Latest
2025-10-30 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
1.5.5
2022-11-16 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
1.5.0
2016-06-23 · diff ↗
R
R 3.3.0 released · 2016-05-03
1.4.1
2016-01-23 · diff ↗
1.3.3
2015-05-28 · diff ↗

Show 4 earlier events

R
R 3.2.0 released · 2015-04-16
1.3.1
2015-04-05 · diff ↗
1.1
2014-08-11
R
R 3.1.0 released · 2014-04-10

Package metadata

First published: 2014-08-11
Total releases: 7 / 12 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 2.15.0
Download size: 595 KB
Installed size: not tracked yet
With dependencies: not tracked yet