GetH1AtLeast

Specify which configurations among <code>Hconfig</code> correspond
to the composite alternative hypothesis : {at least "<code>AtLeast</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

GetH1AtLeast function

<dl><dt>Hconfig</dt>
<dd>A list of all possible combination of \(H_0\) and \(H_1\) hypotheses generated by the GetHconfig() function.</dd>
<dt>AtLeast</dt>
<dd>How many \(H_1\) hypotheses at least 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 <code>FALSE</code>).</dd>
<dt>SameSign</dt>
<dd>Should the significant test series have the same sign ? (optional, default is <code>FALSE</code>).</dd></dl>

Arguments

Specify the configurations corresponding to the composite \(H_1\) test "AtLeast". — GetH1AtLeast

<dl>

<dt>Hconfig</dt>
<dd>A list of all possible combination of \(H_0\) and \(H_1\) hypotheses generated by the GetHconfig() function.</dd>


<dt>AtLeast</dt>
<dd>How many \(H_1\) hypotheses at least 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 <code>FALSE</code>).</dd>


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

</dl>

GetH1AtLeast: Specify the configurations corresponding to the composite \(H_1\) test "AtLeast".

Description

Usage

Value

Arguments

See Also

Examples