specificity

Computes specificity from two PDAG caugi::caugi objects.
It converts the caugi::caugi objects to adjacency matrices and computes
specificity as <code>TN/(TN + FP)</code>, where <code>TN</code> are truth negatives and
<code>FP</code> are false positives. If <code>TN + FP = 0</code>, <code>1</code> is returned.
Only supports caugi::caugi objects with these edge types present <code>--&gt;</code>, <code>&lt;--&gt;</code>, <code>---</code> and no edge.

Tools for causal structure learning from observational data, with emphasis on temporally ordered variables.
The package implements the Temporal Peter–Clark (TPC) algorithm (Petersen, Osler & Ekstrøm, 2021;
<doi:10.1093/aje/kwab087>), the Temporal Greedy Equivalence Search (TGES) algorithm (Larsen, Ekstrøm & Petersen,
2025; <doi:10.48550/arXiv.2502.06232>) and Temporal Fast Causal Inference (TFCI).
It provides a unified framework for specifying background knowledge,
which can be incorporated into the implemented algorithms from the R packages 'bnlearn' (Scutari, 2010;
<doi:10.18637/jss.v035.i03>) and
'pcalg' (Kalish et al., 2012; <doi:10.18637/jss.v047.i11>), as well as the Java library 'Tetrad'
(Scheines et al., 1998; <doi:10.1207/s15327906mbr3301_3>).
The package further includes utilities for visualization, comparison, and evaluation of graph structures,
facilitating performance evaluation and methodological studies.

Bjarke Hautop Kristensen

causalDisco

Tools for Causal Discovery on Observational Data

Frederik Fabricius-Bjerre

Anne Helby Petersen

Claus Thorn Ekstrøm

Tobias Ellegaard Larsen

specificity function

<dl><dt>truth</dt>
<dd>A caugi::caugi object representing the truth graph.</dd>
<dt>est</dt>
<dd>A caugi::caugi object representing the estimated graph.</dd>
<dt>type</dt>
<dd>Character string specifying the comparison type:<ul>
<li><code>"adj"</code>: adjacency comparison.</li>
<li><code>"dir"</code>: orientation comparison conditional on shared adjacencies.</li>
</ul></dd></dl>

Arguments

Specificity — specificity

<dl>

<dt>truth</dt>
<dd>A caugi::caugi object representing the truth graph.</dd>


<dt>est</dt>
<dd>A caugi::caugi object representing the estimated graph.</dd>


<dt>type</dt>
<dd>Character string specifying the comparison type:<ul>
<li><code>"adj"</code>: adjacency comparison.</li>
<li><code>"dir"</code>: orientation comparison conditional on shared adjacencies.</li>
</ul></dd>

</dl>

specificity: Specificity

Description

Usage

Value

Arguments

See Also

Examples