GetH1Equal

Specify which configurations among <code>Hconfig</code> correspond
to the composite alternative hypothesis :{Exactly "<code>Equal</code>" \(H_1\) hypotheses are of interest }

Provides functions for the joint analysis of Q sets of
p-values obtained for the same list of items. This joint analysis is
performed by querying a composite hypothesis, i.e. an arbitrary
complex combination of simple hypotheses, as described in Mary-Huard
et al. (2021) <doi:10.1093/bioinformatics/btab592> and De Walsche et
al.(2025) <doi: 10.1093/nargab/lqaf118>. In this approach, the Q-uplet
of p-values associated with each item is distributed as a multivariate
mixture, where each of the 2^Q components corresponds to a specific
combination of simple hypotheses. The dependence between the p-value
series is considered using a Gaussian copula function. A p-value for
the composite hypothesis test is derived from the posterior
probabilities.

Tristan Mary-Huard

Query Composite Hypotheses

Annaig De Walsche

Franck Gauthier

GetH1Equal function

<dl><dt>Hconfig</dt>
<dd>A list of all possible combination of H0 and H1 hypotheses generated by the GetHconfig() function.</dd>
<dt>Equal</dt>
<dd>What is the exact number of \(H_1\) hypotheses for the item to be of interest? (an integer or a vector).</dd>
<dt>Consecutive</dt>
<dd>Should the significant test series be consecutive ? (optional, default is FALSE).</dd>
<dt>SameSign</dt>
<dd>Should the significant test series have the same sign ? (optional, default is FALSE).</dd></dl>

Arguments

Specify the configurations corresponding to the composite \(H_1\) test "Equal". — GetH1Equal

<dl>

<dt>Hconfig</dt>
<dd>A list of all possible combination of H0 and H1 hypotheses generated by the GetHconfig() function.</dd>


<dt>Equal</dt>
<dd>What is the exact number of \(H_1\) hypotheses for the item to be of interest? (an integer or a vector).</dd>


<dt>Consecutive</dt>
<dd>Should the significant test series be consecutive ? (optional, default is FALSE).</dd>


<dt>SameSign</dt>
<dd>Should the significant test series have the same sign ? (optional, default is FALSE).</dd>

</dl>

GetH1Equal: Specify the configurations corresponding to the composite \(H_1\) test "Equal".

Description

Usage

Value

Arguments

See Also

Examples