Part I - Conceptual Framework | The simulated data | Part II - Quality of the functional space | Part III - Paired contrasts | Part IV - Which species moved the community? | Part V - Functional entities | Part VI - Many communities: a global test | Part VII - Baseline topology | Part VIII - Methodological notes | Choosing stratum_size | Known limits of the null models | Interpreting FRic | Normalisation | Leverage: additive decomposition
Package: ascent 0.5.0
ascent: Multi-Layer Decomposition of Functional Community Restructuring
Implements the 'ASC-CFD' (Assemblage Shift Characterization - Community Functional Dynamics) framework for decomposing functional community restructuring into positional (centroid displacement), dispersive (functional dispersion), and boundary (convex hull volume) components. Tests each component against two null models: a sampling null model (individuals or replicates reassigned between communities) and a stratified trait-permutation null model, with a single global test when many communities are compared. Functional entities (species with similar traits) help detect replacement among similar species, and species-level leverage identifies the taxa driving functional shifts. Supports both temporal (paired) and spatial (pairwise) comparisons.
Authors:
ascent_0.5.0.tar.gz
ascent_0.5.0.zip(r-4.7-any)ascent_0.5.0.zip(r-4.6-any)ascent_0.5.0.zip(r-4.5-any)
ascent_0.5.0.tgz(r-4.6-any)ascent_0.5.0.tgz(r-4.5-any)
ascent_0.5.0.tar.gz(r-4.7-any)ascent_0.5.0.tar.gz(r-4.6-any)
ascent_0.5.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
ascent/json (API)
| # Install 'ascent' in R: |
| install.packages('ascent', repos = c('https://v3ndetta96.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/v3ndetta96/ascent/issues
Datasets:
- birds_sim - Simulated Bird Communities
Last updated from:48319b9de8. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 136 | ||
| source / vignettes | OK | 174 | ||
| linux-release | OK | 126 | ||
| macos-release | OK | 206 | ||
| macos-oldrel | OK | 153 | ||
| windows-devel | OK | 82 | ||
| windows-release | OK | 76 | ||
| windows-oldrel | OK | 79 | ||
| wasm-release | OK | 104 |
Exports:asc_baselineasc_entitiesasc_nullasc_pairedasc_pairwiseasc_transitionsassess_functional_space
Dependencies:abindcliclustercpp11farvergeometryggplot2gluegtableisobandlabelinglifecyclelinproglpSolvemagicR6RColorBrewerRcppRcppProgressrlangS7scalesvctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Baseline Functional Topology of Entities | asc_baseline |
| Identify Functional Entities (Species Clustering) | asc_entities |
| Null Models for Multi-Layer Functional Shifts | asc_null |
| Paired Functional Multidimensional Restructuring | asc_paired |
| Pairwise Functional Spatial Divergence | asc_pairwise |
| Functional Transitions: Species Leverage, Partition and Entities | asc_transitions |
| Assess Functional Space Quality | assess_functional_space |
| Simulated Bird Communities | birds_sim |
| Plot Multidimensional Functional Restructuring | plot.ascfcd |
| Plot Functional Entities Dendrogram | plot.ascfcd_entities |
| Plot Pairwise Functional Spatial Divergence | plot.ascfcd_pw |
| Plot Functional Leverage | plot.ascfcd_transitions |
| Summary for Paired Functional Centroid Displacement | summary.ascfcd |
| Summary for Baseline Functional Entities | summary.ascfcd_base |
| Summary for Functional Entities Classification | summary.ascfcd_entities |
| Summary for Pairwise Functional Spatial Divergence | summary.ascfcd_pw |
| Summary for Functional Transitions | summary.ascfcd_transitions |