bandsfdp - Compute Upper Prediction Bounds on the FDP in Competition-Based
Setups
Implements functions that calculate upper prediction
bounds on the false discovery proportion (FDP) in the list of
discoveries returned by competition-based setups, implementing
Ebadi et al. (2022) <arXiv:2302.11837>. Such setups include
target-decoy competition (TDC) in computational mass
spectrometry and the knockoff construction in linear regression
(note this package typically uses the terminology of TDC).
Included is the standardized (TDC-SB) and uniform (TDC-UB)
bound on TDC's FDP, and the simultaneous standardized and
uniform bands. Requires pre-computed Monte Carlo statistics
available at <https://github.com/uni-Arya/fdpbandsdata>. This
data can be downloaded by running the command
'devtools::install_github("uni-Arya/fdpbandsdata")' in R and
restarting R after installation. The size of this data is
roughly 81Mb.
