Package: memoria 1.1.0
memoria: Quantifying Ecological Memory in Palaeoecological Datasets and Other Long Time-Series
Quantifies ecological memory in long time-series using Random Forest models ('Benito', 'Gil-Romera', and 'Birks' 2019 <doi:10.1111/ecog.04772>) fitted with 'ranger' (Wright and Ziegler 2017 <doi:10.18637/jss.v077.i01>). Ecological memory is assessed by modeling a response variable as a function of lagged predictors, distinguishing endogenous memory (lagged response) from exogenous memory (lagged environmental drivers). Designed for palaeoecological datasets and simulated pollen curves from 'virtualPollen', but applicable to any long time-series with environmental drivers and a biotic response.
Authors:
memoria_1.1.0.tar.gz
memoria_1.1.0.zip(r-4.7-any)memoria_1.1.0.zip(r-4.6-any)memoria_1.1.0.zip(r-4.5-any)
memoria_1.1.0.tgz(r-4.6-any)memoria_1.1.0.tgz(r-4.5-any)
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memoria_1.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
memoria/json (API)
| # Install 'memoria' in R: |
| install.packages('memoria', repos = c('https://blasbenito.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/blasbenito/memoria/issues
Pkgdown/docs site:https://blasbenito.github.io
- climate - Dataframe with palaeoclimatic data.
- palaeodata - Dataframe with pollen and climate data.
- palaeodataLagged - Lagged data generated by 'prepareLaggedData'.
- palaeodataMemory - Output of 'computeMemory'
- pollen - Dataframe with pollen counts.
Last updated from:4291380964. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 181 | ||
| source / vignettes | OK | 190 | ||
| linux-release | OK | 138 | ||
| macos-release | OK | 114 | ||
| macos-oldrel | OK | 152 | ||
| windows-devel | OK | 116 | ||
| windows-release | OK | 101 | ||
| windows-oldrel | OK | 125 | ||
| wasm-release | OK | 108 |
Exports:alignTimeSeriescomputeMemoryexperimentToTableextractMemoryFeatureslagTimeSeriesmergePalaeoDataplotExperimentplotMemoryprepareLaggedDatarunExperiment
Dependencies:clicpp11farverggplot2gluegtableisobandlabelinglatticelifecycleMatrixR6rangerRColorBrewerRcppRcppEigenrlangS7scalesvctrsviridisLitewithrzoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Align and join multiple time series to a common temporal resolution | alignTimeSeries mergePalaeoData |
| Dataframe with palaeoclimatic data. | climate |
| Quantifies ecological memory with Random Forest. | computeMemory |
| Turns the outcome of 'runExperiment' into a long table. | experimentToTable |
| Extracts ecological memory features from the output of 'computeMemory'. | extractMemoryFeatures |
| Create lagged versions of time series variables | lagTimeSeries prepareLaggedData |
| Dataframe with pollen and climate data. | palaeodata |
| Lagged data generated by 'prepareLaggedData'. | palaeodataLagged |
| Output of 'computeMemory' | palaeodataMemory |
| Plots the output of 'runExperiment'. | plotExperiment |
| Plots output of 'computeMemory' | plotMemory |
| Dataframe with pollen counts. | pollen |
| Computes ecological memory patterns on simulated pollen curves produced by the 'virtualPollen' package. | runExperiment |