as_char_mat

constructor for character matrices for stratigraphic transformations &amp; taphonomic effects

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, phylogenetic trees), 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, biostratigraphy 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.

Niklas Hohmann

StratPal

Stratigraphic Paleobiology Modeling Pipelines

as_char_mat function

<dl><dt>mat</dt>
<dd>matrix containing the characters, where rows correspond to
taxa and columns correspond to the characters. Must have column names with taxon names</dd>
<dt>pos</dt>
<dd>named vector, with names matching the taxon names of the matrix. Provides the position (time/height) of the taxa in the character matrix</dd></dl>

Arguments

construct character matrix — as_char_mat

<dl>

<dt>mat</dt>
<dd>matrix containing the characters, where rows correspond to
taxa and columns correspond to the characters. Must have column names with taxon names</dd>


<dt>pos</dt>
<dd>named vector, with names matching the taxon names of the matrix. Provides the position (time/height) of the taxa in the character matrix</dd>

</dl>

as_char_mat: construct character matrix

Description

Usage

Value

Arguments