f1_separation_signed

Signed case function: Separate f1 into f+ and f-

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

f1_separation_signed function

<dl><dt>XMat</dt>
<dd>a matrix of probit-transformed p-values, each column corresponding to a p-value serie.</dd>
<dt>f0Mat</dt>
<dd>a matrix containing the evaluation of the marginal density functions under H0 at each items, each column corresponding to a p-value serie.</dd>
<dt>f1Mat</dt>
<dd>a matrix containing the evaluation of the marginal density functions under H1 at each items, each column corresponding to a p-value serie.</dd>
<dt>p0</dt>
<dd>the proportions of H0 items for each series.</dd>
<dt>plotting</dt>
<dd>boolean, should some diagnostic graphs be plotted. Default is FALSE.</dd></dl>

Arguments

Signed case function: Separate f1 into f+ and f- — f1_separation_signed

<dl>

<dt>XMat</dt>
<dd>a matrix of probit-transformed p-values, each column corresponding to a p-value serie.</dd>


<dt>f0Mat</dt>
<dd>a matrix containing the evaluation of the marginal density functions under H0 at each items, each column corresponding to a p-value serie.</dd>


<dt>f1Mat</dt>
<dd>a matrix containing the evaluation of the marginal density functions under H1 at each items, each column corresponding to a p-value serie.</dd>


<dt>p0</dt>
<dd>the proportions of H0 items for each series.</dd>


<dt>plotting</dt>
<dd>boolean, should some diagnostic graphs be plotted. Default is FALSE.</dd>

</dl>

f1_separation_signed: Signed case function: Separate f1 into f+ and f-

Description

Usage

Value

Arguments