print.slendr_pop

print.slendr_region

print.slendr_map

print.slendr_model

All spatial objects in the slendr package are internally represented as
Simple Features (<code>sf</code>) objects. This fact is hidden in most
circumstances this, as the goal of the slendr package is to provide
functionality at a much higher level (population boundaries, geographic
regions, instead of individual polygons and other "low-level" geometric
objects), without the users having to worry about low-level details involved
in handling spatial geometries. However, the full <code>sf</code> object
representation can be always printed by calling <code>x[]</code>.

A framework for simulating spatially explicit genomic data which
leverages real cartographic information for programmatic and visual encoding
of spatiotemporal population dynamics on real geographic landscapes. Population
genetic models are then automatically executed by the 'SLiM' software by Haller
et al. (2019) <doi:10.1093/molbev/msy228> behind the scenes, using a custom
built-in simulation 'SLiM' script. Additionally, fully abstract spatial models
not tied to a specific geographic location are supported, and users can also
simulate data from standard, non-spatial, random-mating models. These can be
simulated either with the 'SLiM' built-in back-end script, or using an efficient
coalescent population genetics simulator 'msprime' by Baumdicker et al. (2022)
<doi:10.1093/genetics/iyab229> with a custom-built 'Python' script bundled with the
R package. Simulated genomic data is saved in a tree-sequence format and can be
loaded, manipulated, and summarised using tree-sequence functionality via an R
interface to the 'Python' module 'tskit' by Kelleher et al. (2019)
<doi:10.1038/s41588-019-0483-y>. Complete model configuration, simulation and
analysis pipelines can be therefore constructed without a need to leave the R
environment, eliminating friction between disparate tools for population genetic
simulations and data analysis.

Martin Petr

slendr

A Simulation Framework for Spatiotemporal Population Genetics

print.slendr_pop function

<dl><dt>x</dt>
<dd>Object of a class <code>slendr</code> (either <code>slendr_pop</code>,
<code>slendr_map</code>, <code>slendr_region</code>, or <code>slendr_table</code>)</dd>
<dt>...</dt>
<dd>Additional arguments passed to <code>print</code></dd></dl>

Arguments

Print a short summary of a slendr object — print.slendr_pop

<dl>

<dt>x</dt>
<dd>Object of a class <code>slendr</code> (either <code>slendr_pop</code>,
<code>slendr_map</code>, <code>slendr_region</code>, or <code>slendr_table</code>)</dd>


<dt>...</dt>
<dd>Additional arguments passed to <code>print</code></dd>

</dl>

print.slendr_pop: Print a short summary of a `slendr` object

Description

Usage

Value

Arguments