Package: StratPal 0.3.0.9000

Niklas Hohmann

StratPal: Stratigraphic Paleobiology Modeling Pipelines

The fossil record is a joint expression of ecological, taphonomic, evolutionary, and stratigraphic processes (Holland and Patzkowsky, 2012, ISBN:978-0226649382). This package allowing to simulate biological processes in the time domain (e.g., trait evolution, fossil abundance), and examine how their expression in the rock record (stratigraphic domain) is influenced based on age-depth models, ecological niche models, and taphonomic effects. Functions simulating common processes used in modeling trait evolution or event type data such as first/last occurrences are provided and can be used standalone or as part of a pipeline. The package comes with example data sets and tutorials in several vignettes, which can be used as a template to set up one's own simulation.

Authors:Niklas Hohmann [aut, cre]

StratPal_0.3.0.9000.tar.gz
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StratPal.pdf |StratPal.html
StratPal/json (API)
NEWS

# Install 'StratPal' in R:
install.packages('StratPal', repos = c('https://mindthegap-erc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/mindthegap-erc/stratpal/issues

Datasets:
  • scenarioA - Example data, scenario A from Hohmann et al.

On CRAN:

palaeobiologypalaeontologypaleobiologypaleontologystratigraphic-paleobiologystratigraphy

5.79 score 1 stars 17 scripts 109 downloads 17 exports 12 dependencies

Last updated 1 days agofrom:dd29ae2406. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 22 2024
R-4.5-winOKNov 22 2024
R-4.5-linuxOKNov 22 2024
R-4.4-winOKNov 22 2024
R-4.4-macOKNov 22 2024
R-4.3-winOKNov 22 2024
R-4.3-macOKNov 22 2024

Exports:apply_nicheapply_taphonomybounded_nicheornstein_uhlenbeckornstein_uhlenbeck_slp3p3_var_rateprob_removerandom_walkrandom_walk_slreduce_to_paleoTSrej_sampsnd_nichestasisstasis_slstrict_stasis_slthin

Dependencies:admtoolsapecodetoolsdigestdoParallelforeachiteratorslatticemnormtnlmepaleoTSRcpp

Advanced Functionality and Writing Extensions

Rendered fromadvanced_functionality.Rmdusingknitr::rmarkdownon Nov 22 2024.

Last update: 2024-10-04
Started: 2024-07-19

Documentation of defined S3 classes

Rendered fromStratPal_docs.Rmdusingknitr::rmarkdownon Nov 22 2024.

Last update: 2024-10-04
Started: 2024-10-03

Introduction to the StratPal package

Rendered fromStratPal.Rmdusingknitr::rmarkdownon Nov 22 2024.

Last update: 2024-10-04
Started: 2024-07-15

Stratigraphic Paleobiology for Event Data

Rendered fromevent_data.Rmdusingknitr::rmarkdownon Nov 22 2024.

Last update: 2024-10-14
Started: 2024-07-19

Stratigraphic Paleobiology for Phenotypic Evolution

Rendered fromphenotypic_evolution.Rmdusingknitr::rmarkdownon Nov 22 2024.

Last update: 2024-10-04
Started: 2024-07-19

Usage with the paleoTS package

Rendered frompaleoTS_functionality.Rmdusingknitr::rmarkdownon Nov 22 2024.

Last update: 2024-10-14
Started: 2024-10-03