kyotil - Utility Functions for Statistical Analysis Report Generation and Monte Carlo Studies

Helper functions for creating formatted summary of regression models, writing publication-ready tables to latex files, and running Monte Carlo experiments.

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openblas

7.85 score 9 dependents 227 scripts 1.3k downloads

chngpt - Estimation and Hypothesis Testing for Threshold Regression

Threshold regression models are also called two-phase regression, broken-stick regression, split-point regression, structural change models, and regression kink models, with and without interaction terms. Methods for both continuous and discontinuous threshold models are included, but the support for the former is much greater. This package is described in Fong, Huang, Gilbert and Permar (2017) <DOI:10.1186/s12859-017-1863-x> and the package vignette.

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openblascpp

5.49 score 1 stars 3 dependents 65 scripts 1.1k downloads

FSDAM - Forward Stepwise Deep Autoencoder-Based Monotone NLDR

FS-DAM performs feature extraction through latent variables identification. Implementation is based on autoencoders with monotonicity and orthogonality constraints.

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3.70 score 5 scripts 188 downloads

marginalizedRisk - Estimating Marginalized Risk

Estimates risk as a function of a marker by integrating over other covariates in a conditional risk model.

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3.69 score 49 scripts 647 downloads

mdw - Maximum Diversity Weighting

Dimension-reduction methods aim at defining a score that maximizes signal diversity. Three approaches, tree weight, maximum entropy weights, and maximum variance weights are provided. These methods are described in He and Fong (2019) <DOI:10.1002/sim.8212>.

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3.41 score 26 scripts 193 downloads

copcor - Correlates of Protection and Correlates of Risk Functions

Correlates of protection (CoP) and correlates of risk (CoR) study the immune biomarkers associated with an infectious disease outcome, e.g. COVID or HIV-1 infection. This package contains shared functions for analyzing CoP and CoR, including bootstrapping procedures, competing risk estimation, and bootstrapping marginalized risks.

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2.93 score 17 scripts 193 downloads

robustrank - Robust Rank-Based Tests

Implements two-sample tests for paired data with missing values (Fong, Huang, Lemos and McElrath 2018, Biostatics, <doi:10.1093/biostatistics/kxx039>) and modified Wilcoxon-Mann-Whitney two sample location test, also known as the Fligner-Policello test.

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1.00 score 9 scripts 234 downloads

krm - Kernel Based Regression Models

Implements several methods for testing the variance component parameter in regression models that contain kernel-based random effects, including a maximum of adjusted scores test. Several kernels are supported, including a profile hidden Markov model mutual information kernel for protein sequence. This package is described in Fong et al. (2015) <DOI:10.1093/biostatistics/kxu056>.

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cpp

1.00 score 1 stars 5 scripts 194 downloads