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: | 2.1.0 |
| Depends: | R (≥ 2.10) |
| Imports: | copula,dplyr, graphics,ks,purrr,qvalue,Rcpp, stats,stringr, utils |
| LinkingTo: | Rcpp,RcppArmadillo |
| Published: | 2025-07-04 |
| DOI: | 10.32614/CRAN.package.qch |
| 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 |
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