param.net_from_table

Sets the epidemic parameters for stochastic network models with
<code>netsim</code> using a specially formatted data frame of
parameters.

Tools for simulating mathematical models of infectious disease dynamics.
Epidemic model classes include deterministic compartmental models, stochastic
individual-contact models, and stochastic network models. Network models use the
robust statistical methods of exponential-family random graph models (ERGMs)
from the Statnet suite of software packages in R. Standard templates for epidemic
modeling include SI, SIR, and SIS disease types. EpiModel features an API for
extending these templates to address novel scientific research aims. Full
methods for EpiModel are detailed in Jenness et al. (2018, <doi:10.18637/jss.v084.i08>).

Samuel Jenness

EpiModel

Mathematical Modeling of Infectious Disease Dynamics

Steven M. Goodreau

Martina Morris

Adrien Le Guillou

Chad Klumb

Skye Bender-deMoll

param.net_from_table function

<dl><dt>long.param.df</dt>
<dd>A <code>data.frame</code> of parameters. See details for the
expected format.</dd></dl>

Arguments

It is possible to set input parameters using a specifically formatted
<code>data.frame</code> object. The first 3 columns of this <code>data.frame</code> must
be:<ul>
<li><code>param</code>: The name of the parameter. If this is a non-scalar
parameter (a vector of length &gt; 1), end the parameter name with the
position on the vector (e.g., <code>"p_1"</code>, <code>"p_2"</code>, ...).</li>
<li><code>value</code>: the value for the parameter (or the value of the
parameter in the Nth position if non-scalar).</li>
<li><code>type</code>: a character string containing either <code>"numeric"</code>,
<code>"logical"</code>, or <code>"character"</code> to define the parameter object
class.</li>
</ul>In addition to these 3 columns, the <code>data.frame</code> can contain any number
of other columns, such as <code>details</code> or <code>source</code> columns to document
parameter meta-data. However, these extra columns will not be used by
EpiModel.

long.param.df

Parameters List for Stochastic Network Models from a Formatted
Data Frame — param.net_from_table

<dl>

<dt>long.param.df</dt>
<dd>A <code>data.frame</code> of parameters. See details for the
expected format.</dd>

</dl>

It is possible to set input parameters using a specifically formatted
<code>data.frame</code> object. The first 3 columns of this <code>data.frame</code> must
be:<ul>
<li><code>param</code>: The name of the parameter. If this is a non-scalar
parameter (a vector of length &gt; 1), end the parameter name with the
position on the vector (e.g., <code>"p_1"</code>, <code>"p_2"</code>, ...).</li>
<li><code>value</code>: the value for the parameter (or the value of the
parameter in the Nth position if non-scalar).</li>
<li><code>type</code>: a character string containing either <code>"numeric"</code>,
<code>"logical"</code>, or <code>"character"</code> to define the parameter object
class.</li>
</ul>

In addition to these 3 columns, the <code>data.frame</code> can contain any number
of other columns, such as <code>details</code> or <code>source</code> columns to document
parameter meta-data. However, these extra columns will not be used by
EpiModel.

param.net_from_table: Parameters List for Stochastic Network Models from a Formatted Data Frame

Description

Usage

Value

Arguments

long.param.df