Package: ecotraj 1.0.0
Miquel De Cáceres
ecotraj: Ecological Trajectory Analysis
Assists ecologists in the analysis of temporal changes of ecosystems, defined as trajectories on a chosen multivariate space, by providing a set of trajectory metrics and visual representations [De Caceres et al. (2019) <doi:10.1002/ecm.1350>; and Sturbois et al. (2021) <doi:10.1016/j.ecolmodel.2020.109400>]. Includes functions to estimate metrics for individual trajectories (length, directionality, angles, ...) as well as metrics to relate pairs of trajectories (dissimilarity and convergence). Functions are also provided to estimate the ecological quality of ecosystem with respect to reference conditions [Sturbois et al. (2023) <doi:10.1002/ecs2.4726>].
Authors:
ecotraj_1.0.0.tar.gz
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ecotraj.pdf |ecotraj.html✨
ecotraj/json (API)
NEWS
| # Install 'ecotraj' in R: |
| install.packages('ecotraj', repos = c('https://emf-creaf.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/emf-creaf/ecotraj/issues
Pkgdown site:https://emf-creaf.github.io
- avoca_sites - Avoca permanent plot dataset
- avoca_strat - Avoca permanent plot dataset
- avoca_surveys - Avoca permanent plot dataset
- furseals - Furseals dataset
- glenan - Glenan dataset
- glomel - Glomel vegetation dataset
- heatmapdata - Heatmapdata dataset
- isoscape - Isoscape dataset
- northseaZoo - North Sea zooplankton dataset
- pike - Pike dataset
Last updated 19 days agofrom:7e4a7ccb5d. Checks:1 OK, 10 NOTE. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Jan 31 2025 |
| R-4.5-win-x86_64 | NOTE | Jan 31 2025 |
| R-4.5-mac-x86_64 | NOTE | Jan 31 2025 |
| R-4.5-mac-aarch64 | NOTE | Jan 31 2025 |
| R-4.5-linux-x86_64 | NOTE | Jan 31 2025 |
| R-4.4-win-x86_64 | NOTE | Jan 31 2025 |
| R-4.4-mac-x86_64 | NOTE | Jan 31 2025 |
| R-4.4-mac-aarch64 | NOTE | Jan 31 2025 |
| R-4.3-win-x86_64 | NOTE | Jan 31 2025 |
| R-4.3-mac-x86_64 | NOTE | Jan 31 2025 |
| R-4.3-mac-aarch64 | NOTE | Jan 31 2025 |
Exports:centerTrajectoriescompareToStateEnvelopecompareToTrajectoryEnvelopecycleConvexitycycleMetricscyclePCoAcycleShiftsdefineTrajectoriesextractCyclesextractFixedDateTrajectoriesextractTrajectorySectionsfixedDateTrajectoryPCoAis.metricsegmentDistancessmoothTrajectoriesstateEnvelopeVariabilitysubsetTrajectoriestrajectoryAnglestrajectoryAngles2DtrajectoryConvergencetrajectoryDirectionalitytrajectoryDistancestrajectoryEnvelopeVariabilitytrajectoryLengthstrajectoryLengths2DtrajectoryMetricstrajectoryPCoAtrajectoryPlottrajectoryProjectiontrajectoryShiftstrajectorySpeedstrajectorySpeeds2DtrajectoryVariabilitytrajectoryWindowMetrics
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Avoca permanent plot dataset | avoca avoca_sites avoca_strat avoca_surveys |
| Trajectory definition | defineTrajectories trajectories |
| furseals dataset | furseals |
| Glenan dataset | glenan |
| Glomel vegetation dataset | glomel |
| heatmapdata dataset | heatmapdata |
| isoscape dataset | isoscape |
| North Sea zooplankton dataset | northseaZoo |
| pike dataset | pike |
| Ecological quality assessment | compareToStateEnvelope compareToTrajectoryEnvelope referenceEnvelopes stateEnvelopeVariability trajectoryEnvelopeVariability |
| Trajectory subsetting | subsetTrajectories |
| Trajectory comparison | segmentDistances trajectoryComparison trajectoryConvergence trajectoryDistances trajectoryShifts |
| Functions for Cyclical Ecological Trajectory Analysis | cycleConvexity cycleMetrics cycles cycleShifts extractCycles extractFixedDateTrajectories fd.trajectories trajectoryCyclical |
| Cyclical trajectory plots | cyclePCoA fixedDateTrajectoryPCoA trajectoryCyclicalPlots |
| Trajectory metrics | trajectoryAngles trajectoryAngles2D trajectoryDirectionality trajectoryLengths trajectoryLengths2D trajectoryMetrics trajectorySpeeds trajectorySpeeds2D trajectoryVariability trajectoryWindowMetrics |
| Trajectory plots | trajectoryPCoA trajectoryPlot |
| Trajectory projection | trajectoryProjection |
| Transform trajectories | centerTrajectories smoothTrajectories transformTrajectories |
