cubature - Adaptive Multivariate Integration over Hypercubes

R wrappers around the cubature C library of Steven G. Johnson for adaptive multivariate integration over hypercubes and the Cuba C library of Thomas Hahn for deterministic and Monte Carlo integration. Scalar and vector interfaces for cubature and Cuba routines are provided; the vector interfaces are highly recommended as demonstrated in the package vignette.

Last updated 8 months ago

fortrancpp

11.08 score 12 stars 162 dependents 488 scripts 21k downloads

impute - impute: Imputation for microarray data

Imputation for microarray data (currently KNN only)

Last updated 4 months ago

microarrayfortran

9.04 score 131 dependents 952 scripts 15k downloads

ECOSolveR - Embedded Conic Solver in R

R interface to the Embedded COnic Solver (ECOS), an efficient and robust C library for convex problems. Conic and equality constraints can be specified in addition to integer and boolean variable constraints for mixed-integer problems. This R interface is inspired by the python interface and has similar calling conventions.

Last updated 9 months ago

7.86 score 5 stars 58 dependents 30 scripts 5.5k downloads

locfdr - Computes Local False Discovery Rates

Computation of local false discovery rates.

Last updated 10 years ago

5.89 score 14 dependents 106 scripts 1.8k downloads

homomorpheR - Homomorphic Computations in R

Homomorphic computations in R for privacy-preserving applications. Currently only the Paillier Scheme is implemented.

Last updated 3 years ago

5.73 score 4 stars 1 dependents 18 scripts 237 downloads

deconvolveR - Empirical Bayes Estimation Strategies

Empirical Bayes methods for learning prior distributions from data. An unknown prior distribution (g) has yielded (unobservable) parameters, each of which produces a data point from a parametric exponential family (f). The goal is to estimate the unknown prior ("g-modeling") by deconvolution and Empirical Bayes methods. Details and examples are in the paper by Narasimhan and Efron (2020, <doi:10.18637/jss.v094.i11>).

Last updated 5 years ago

5.43 score 9 stars 2 dependents 8 scripts 416 downloads

distcomp - Computations over Distributed Data without Aggregation

Implementing algorithms and fitting models when sites (possibly remote) share computation summaries rather than actual data over HTTP with a master R process (using 'opencpu', for example). A stratified Cox model and a singular value decomposition are provided. The former makes direct use of code from the R 'survival' package. (That is, the underlying Cox model code is derived from that in the R 'survival' package.) Sites may provide data via several means: CSV files, Redcap API, etc. An extensible design allows for new methods to be added in the future and includes facilities for local prototyping and testing. Web applications are provided (via 'shiny') for the implemented methods to help in designing and deploying the computations.

Last updated 8 months ago

5.33 score 9 stars 47 scripts 416 downloads

bcaboot - Bias Corrected Bootstrap Confidence Intervals

Computation of bootstrap confidence intervals in an almost automatic fashion as described in Efron and Narasimhan (2020, <doi:10.1080/10618600.2020.1714633>).

Last updated 4 years ago

5.15 score 17 stars 2 dependents 14 scripts 491 downloads

ASSISTant - Adaptive Subgroup Selection in Group Sequential Trials

Clinical trial design for subgroup selection in three-stage group sequential trial. Includes facilities for design, exploration and analysis of such trials. An implementation of the initial DEFUSE-3 trial is also provided as a vignette.

Last updated 5 years ago

4.54 score 23 scripts 406 downloads

sglr - Sequential Generalized Likelihood Ratio Decision Boundaries Proposed by Shih, Lai, Heyse and Chen (2010, <doi:10.1002/Sim.4036>)

We provide functions for computing the decision boundaries for pre-licensure vaccine trials using the Generalized Likelihood Ratio tests proposed by Shih, Lai, Heyse and Chen (2010, <doi:10.1002/sim.4036>).

Last updated 3 years ago

1.70 score 10 scripts 219 downloads

sp23design - Design and Simulation of Seamless Phase II-III Clinical Trials

Provides methods for generating, exploring and executing seamless Phase II-III designs of Lai, Lavori and Shih using generalized likelihood ratio statistics. Includes pdf and source files that describe the entire R implementation with the relevant mathematical details.

Last updated 3 years ago

1.41 score 26 scripts 198 downloads