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zhenkewu

baker:"Nested Partially Latent Class Models"

Provides functions to specify, fit and visualize nested partially-latent class models ( Wu, Deloria-Knoll, Hammitt, and Zeger (2016) <doi:10.1111/rssc.12101>; Wu, Deloria-Knoll, and Zeger (2017) <doi:10.1093/biostatistics/kxw037>; Wu and Chen (2021) <doi:10.1002/sim.8804>) for inference of population disease etiology and individual diagnosis. In the motivating Pneumonia Etiology Research for Child Health (PERCH) study, because both quantities of interest sum to one hundred percent, the PERCH scientists frequently refer to them as population etiology pie and individual etiology pie, hence the name of the package.

Maintained by Zhenke Wu. Last updated 11 months ago.

bayesiancase-controllatent-class-analysisjagscpp

8 stars 6.00 score 21 scripts

markbravington

debug:MVB's Debugger for R

Proper debugger for R functions and scripts, with code display, graceful error recovery, line-numbered conditional breakpoints, access to exit code, flow control, and full keyboard input.

Maintained by Mark V. Bravington. Last updated 4 months ago.

5.18 score 3.4k scripts 1 dependents

markbravington

offarray:Arrays with non-1 offsets

Arrays with non-1 offsets

Maintained by Mark V. Bravington. Last updated 9 days ago.

cpp

3.95 score 17 scripts 5 dependents

professorbeautiful

NNTbiomarker:Calculate Design Parameters for Biomarker Validation Studies

Helps a clinical trial team discuss the clinical goals of a well-defined biomarker with a diagnostic, staging, prognostic, or predictive purpose. From this discussion will come a statistical plan for a (non-randomized) validation trial. Both prospective and retrospective trials are supported. In a specific focused discussion, investigators should determine the range of "discomfort" for the NNT, number needed to treat. The meaning of the discomfort range, [NNTlower, NNTupper], is that within this range most physicians would feel discomfort either in treating or withholding treatment. A pair of NNT values bracketing that range, NNTpos and NNTneg, become the targets of the study's design. If the trial can demonstrate that a positive biomarker test yields an NNT less than NNTlower, and that a negative biomarker test yields an NNT less than NNTlower, then the biomarker may be useful for patients. A highlight of the package is visualization of a "contra-Bayes" theorem, which produces criteria for retrospective case-controls studies.

Maintained by Roger Day. Last updated 6 years ago.

3.65 score 15 scripts

markbravington

offartmb:Use offarray code with RTMB

Helper functions to allow offarray code to work directly under RTMB

Maintained by Mark Bravington. Last updated 9 days ago.

2.78 score 4 scripts 1 dependents

kwb-r

kwb.package:Install / Unstall KWB Packages and Show Package Dependencies

This package contains some helper functions for (un-)installing KWB packages and for showing package dependencies. The function of main interest may be updateKwbPackages() that checks for the latest package version on KWB's server and installs the packages from there if required.

Maintained by Hauke Sonnenberg. Last updated 11 months ago.

package-installation

2.70 score 1 scripts

kwb-r

kwb.rain:Functions to Handle and Plot Rain Data at KWB

Functions to handle and plot rain data at KWB.

Maintained by Hauke Sonnenberg. Last updated 3 years ago.

data-importdata-visualisationproject-flusshygieneproject-kuras

2.70 score

markbravington

lyxport:LyX to MSWord etc

Tools for smooth Lyx export via pandoc, currently to MSWord but to potentially other formats

Maintained by Mark Bravington. Last updated 22 days ago.

cpp

2.54 score

bryanhanson

FuncMap:Hive Plots of R Package Function Calls

Analyzes the function calls in an R package and creates a hive plot of the calls, dividing them among functions that only make outgoing calls (sources), functions that have only incoming calls (sinks), and those that have both incoming calls and make outgoing calls (managers). Function calls can be mapped by their absolute numbers, their normalized absolute numbers, or their rank. FuncMap should be useful for comparing packages at a high level for their overall design. Plus, it's just plain fun. The hive plot concept was developed by Martin Krzywinski (www.hiveplot.com) and inspired this package. Note: this package is maintained for historical reasons. HiveR is a full package for creating hive plots.

Maintained by Bryan A. Hanson. Last updated 7 years ago.

3 stars 2.48 score 3 scripts

kwb-r

kwb.misc:Miscellaneous functions, not yet intended for distribution

Miscellaneous functions for data analysis with R at KWB, not yet intended for distribution. So far, functions of the following lib-files have been imported: hsLibMiaCsoData.R, hsLibDataAvailability.R, hsLibTimeshift.R, hsLibDataSource.R, hsLibImpSenData.R, hsLibRainDist.R, hsLibCalib.R.

Maintained by Hauke Sonnenberg. Last updated 3 years ago.

2.48 score 2 dependents

markbravington

gasplit:Flexible estimation of 2-category proportions

Like a GLM/GAM where the true category of each sample is unknown, but the response data is a continuous variable with known distributions for category-1 and category-2 samples.

Maintained by Mark Bravington. Last updated 9 days ago.

2.40 score

markbravington

despack:Helpers for CKMR design

Help to compute expected Hessian given a design (ie sample sizes) and your CKMR model

Maintained by Mark Bravington. Last updated 9 months ago.

2.18 score 1 dependents

markbravington

microscoping:Preliminary feasibility for CKMR

Rough-as-guts laugh-test design calculations for CKMR on fish

Maintained by Mark V. Bravington. Last updated 9 months ago.

2.18 score 1 dependents

markbravington

deconvodisc:Discrete deconvolution via smoothers

Deconvolves count samples from unknown discrete distros subjected to known discrete convolution matrix

Maintained by Mark Bravington. Last updated 9 months ago.

cpp

2.18 score 1 dependents

barryzee

foodwebWrapper:Enhanced Wrapper to Show Which Functions Call What

Enhances the functionality of the mvbutils::foodweb() program. The matrix-format output of the original program contains identical row names and column names, each name representing a retrieved function. This format is enhanced by using the find_funs() program [see Sebastian (2017) <https://sebastiansauer.github.io/finds_funs/>] to concatenate the package name to the function name. Each package is assigned a unique color, that is used to color code the text naming the packages and the functions. This color coding is extended to the entries of value "1" within the matrix, indicating the pattern of ancestor and descendent functions.

Maintained by Barry Zeeberg. Last updated 1 years ago.

2.00 score

markbravington

TMBO:Code helpers for TMB

Arrays/vectors from index 1 (or any offset you choose, like package 'offarray'), names and dimnames, useful non-crashy error messages, plus simple for-loop aliases. Nicer than raw TMB!

Maintained by Mark V. Bravington. Last updated 24 days ago.

2.00 score 2 scripts

kwb-r

kwb.miacso:functions used in KWB project MIA-CSO

functions used in KWB project MIA-CSO, for example for plotting data availabilities.

Maintained by Hauke Sonnenberg. Last updated 3 years ago.

project-miacso

1.70 score 1 scripts

markbravington

mvbjoblot:One-stop-shop installer

Installs all packages required for MVB CKMR course

Maintained by Mark V. Bravington. Last updated 9 months ago.

1.70 score 1 scripts

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