mod2obspred

a model object of class "glm", "gam", "gbm", "randomForest" or "bart" from which the response variable and fitted (predicted) values can be extracted. Note that, for "randomForest" models, only the out-of-bag prediction is available from the model object (see <code>?predict.randomForest</code> if you have that package installed), so here you'll get different results if you provide 'model' or the modelled 'obs' (and corresponding 'pred') values.

model

logical value indicating whether only 'obs' should be obtained (saves computing time when 'pred' not needed -- used e.g. by <code><a rd-options="" href="/link/prevalence?package=modEvA&version=3.5" data-mini-rdoc="modEvA::prevalence">prevalence</a></code>). Defaults to FALSE.

obs.only

This function takes a model object and returns the observed and (optionally) the fitted values in that model.

Analyses species distribution models and evaluates their performance. It includes functions for performing variation partitioning, calculating several measures of model discrimination and calibration, optimizing prediction thresholds based on a number of criteria, performing multivariate environmental similarity surface (MESS) analysis, and displaying various analytical plots.

A. Barbosa

modEvA

Model Evaluation and Analysis

mod2obspred function

<dl> <dt>model</dt>
<dd>a model object of class "glm", "gam", "gbm", "randomForest" or "bart" from which the response variable and fitted (predicted) values can be extracted. Note that, for "randomForest" models, only the out-of-bag prediction is available from the model object (see <code>?predict.randomForest</code> if you have that package installed), so here you'll get different results if you provide 'model' or the modelled 'obs' (and corresponding 'pred') values.</dd> <dt>obs.only</dt>
<dd>logical value indicating whether only 'obs' should be obtained (saves computing time when 'pred' not needed -- used e.g. by <code>prevalence</code>). Defaults to FALSE.</dd></dl>

Arguments

Author

Extract observed and predicted values from a model object. — mod2obspred

<dl>

 <dt>model</dt>
<dd>a model object of class "glm", "gam", "gbm", "randomForest" or "bart" from which the response variable and fitted (predicted) values can be extracted. Note that, for "randomForest" models, only the out-of-bag prediction is available from the model object (see <code>?predict.randomForest</code> if you have that package installed), so here you'll get different results if you provide 'model' or the modelled 'obs' (and corresponding 'pred') values.</dd>

 <dt>obs.only</dt>
<dd>logical value indicating whether only 'obs' should be obtained (saves computing time when 'pred' not needed -- used e.g. by <code>prevalence</code>). Defaults to FALSE.</dd>

</dl>

mod2obspred: Extract observed and predicted values from a model object.

Description

Usage

Value

Arguments

Author

See Also

Examples