A Better Alternative to the Hodrick-Prescott Filter
person("Justin M.", "Shea", email = "jshea@roosevelt.edu", role = c("aut", "cre"))
In the working paper titled "Why You Should Never Use the Hodrick-Prescott
Filter", James D. Hamilton proposes an interesting new alternative to economic
time series filtering. The neverhpfilter package provides functions for implementing
his solution. Hamilton (2017) <doi:10.3386/w23429>.

An Alternative to the Hodrick-Prescott Filter
In the working paper titled "Why You Should Never Use the Hodrick-Prescott
Filter", James D. Hamilton proposes a new alternative to economic time series
filtering. The neverhpfilter package provides functions and data for reproducing his work. Hamilton (2017) <doi:10.3386/w23429>.

True Discovery Guarantee by the New Focus Level Procedure
A new focus level procedure is developed based on the old focus level procedure of Goeman and Mansmann (2008) <doi:10.1093/bioinformatics/btm628> and the closed testing procedure with globaltest of Xu and Goeman (2020) <arXiv:2001.01541>. It produces the lower bound for the number of true discoveries in any gene set or GO (Gene Ontology) term. It is more powerful for the focus level GO terms chosen by user before seeing the data than the non-focus level GO terms or gene sets chosen after seeing the data.

True Discovery Guarantee by Combining Partial Closed Testings
Closed testing has been proved powerful for true discovery guarantee. The computation of closed testing is, however, quite burdensome. A general way to reduce computational complexity is to combine partial closed testings for some prespecified feature sets of interest. Partial closed testings are performed at Bonferroni-corrected alpha level to guarantee the lower bounds for the number of true discoveries in prespecified sets are simultaneously valid. For any post hoc chosen sets of interest, coherence property is used to get the lower bound. In this package, we implement closed testing with globaltest to calculate the lower bound for number of true discoveries, see Ningning Xu et.al (2021) <arXiv:2001.01541> for detailed description.