tamat

Various tools for inferring causal models from observational data. The package
includes an implementation of the temporal Peter-Clark (TPC) algorithm. Petersen, Osler
and Ekstrøm (2021) <doi:10.1093/aje/kwab087>. It also includes general tools
for evaluating differences in adjacency matrices, which can be used for evaluating
performance of causal discovery procedures.

Bjarke Hautop Kristensen

causalDisco

Tools for Causal Discovery on Observational Data

Anne Helby Petersen

Tobias Ellegaard Larsen

Claus Thorn Ekstrøm

tamat function

<dl><dt>amat</dt>
<dd>Adjacency matrix.
Row names and column names should be identical and be the names of
the variables/nodes. Variable names should be prefixed with their
period, e.g. "child_x" for variable "x" at period "child"</dd>
<dt>order</dt>
<dd>A character vector with the periods in their order.</dd>
<dt>type</dt>
<dd>The type of adjancency matrix, must be one of <code>"pdag"</code> or
<code>"ag"</code>. If <code>NULL</code> (default), the function first checks for a <code>tamat_type</code>
attribute in the input object and makes sure the output matches that, and if no
the input does not have this attribute, it is set to <code>"tpdag"</code>. Otherwise,
the user can specify a type manually as follows: <code>"pdag"</code> should be used for
directed graphs, namely
DAG, CPDAG, MPDAG, TPDAG and PDAG adjacency matrices, i.e. adjacency matrices
where A(i,j) = A(j,i) = 1 is interpreted as an undirected edge. <code>"ag"</code>
may be used for ADMGs, MAGs, PAGs and TPAGs, where further possible arrowhead
options are available (see amat)</dd></dl>

Arguments

Make a temporal adjacency matrix — tamat

<dl>

<dt>amat</dt>
<dd>Adjacency matrix.
Row names and column names should be identical and be the names of
the variables/nodes. Variable names should be prefixed with their
period, e.g. "child_x" for variable "x" at period "child"</dd>


<dt>order</dt>
<dd>A character vector with the periods in their order.</dd>


<dt>type</dt>
<dd>The type of adjancency matrix, must be one of <code>"pdag"</code> or
<code>"ag"</code>. If <code>NULL</code> (default), the function first checks for a <code>tamat_type</code>
attribute in the input object and makes sure the output matches that, and if no
the input does not have this attribute, it is set to <code>"tpdag"</code>. Otherwise,
the user can specify a type manually as follows: <code>"pdag"</code> should be used for
directed graphs, namely
DAG, CPDAG, MPDAG, TPDAG and PDAG adjacency matrices, i.e. adjacency matrices
where A(i,j) = A(j,i) = 1 is interpreted as an undirected edge. <code>"ag"</code>
may be used for ADMGs, MAGs, PAGs and TPAGs, where further possible arrowhead
options are available (see amat)</dd>

</dl>

tamat: Make a temporal adjacency matrix

Description

Usage

Value

Arguments