R: Stratigraphic Paleobiology Modeling Pipelines

# Stratigraphic Paleobiology Modeling Pipelines

## Documentation for package ‘StratPal’ version 0.7.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

all_preserved | Indestructible fossils
apply_niche | apply niche model
apply_taphonomy | model taphonomic effects
as_char_mat | construct character matrix
bounded_niche | define niche from boundaries
discrete_gradient | construct discretized gradient
discrete_niche | niche from discrete data
gradient_from_data | gradient or taphonomic conditions from data
is_char_mat | validity of character matrices
last_occ | last occurrence of taxon
ornstein_uhlenbeck | simulate ornstein-uhlenbeck (OU) process
ornstein_uhlenbeck_sl | simulate ornstein-uhlenbeck (OU) process (specimen level)
p3 | simulate Poisson point process
p3_var_rate | simulate variable rate Poisson point process
perfect_preservation | perfect taphonomic conditions
plot.pre_paleoTS | plot pre-paleoTS objects
prob_remove | probabilistic removal of elements
random_walk | simulate (un)biased random walk
random_walk_sl | simulate (un)biased random walk (specimen level)
range_offset | range offset of taxon
reduce_to_paleoTS | reduce pre-paleoTS format to paleoTS
rej_samp | random numbers from rejection sampling
scenarioA | example data, emulates scenario A from Hohmann et al. (2024)
snd_niche | simple niche model
stasis | simulate phenotypic stasis
stasis_sl | simulate phenotypic stasis (specimen level)
strat_filter | generate basic stratigraphic filter
strict_stasis_sl | simulate strict phenotypic stasis (specimen level)
thin | thin a series of events (e.g. fossil occurrences)
trivial_gradient | model absence of environmental gradients
trivial_niche | trivial niche model