Man pages for StratPal
Stratigraphic Paleobiology Modeling Pipelines
| 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 |
| StratPal-package | StratPal: Stratigraphic Paleobiology Modeling Pipelines |
| 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 |
