qch: Query Composite Hypotheses
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.(2023) <doi:10.1101/2024.03.17.585412>. 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.
| Version: |
2.0.0 |
| Depends: |
R (≥ 2.10) |
| Imports: |
copula, dplyr, graphics, ks, purrr, qvalue, Rcpp, stats, stringr, utils |
| LinkingTo: |
Rcpp, RcppArmadillo |
| Published: |
2024-03-29 |
| Author: |
Tristan Mary-Huard
 [aut, cre],
Annaig De Walsche
[aut],
Franck Gauthier
[ctb] |
| Maintainer: |
Tristan Mary-Huard <tristan.mary-huard at agroparistech.fr> |
| License: |
GPL-3 |
| NeedsCompilation: |
yes |
| CRAN checks: |
qch results |
Documentation:
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