Package: TwoPhaseInd 1.1.2

James Dai

TwoPhaseInd: Estimate Gene-Treatment Interaction Exploiting Randomization

Estimation of gene-treatment interactions in randomized clinical trials exploiting gene-treatment independence. Methods used in the package refer to J. Y. Dai, M. LeBlanc, and C. Kooperberg (2009) Biometrics <doi:10.1111/j.1541-0420.2008.01046.x>.

Authors:James Dai [aut, cre], Xiaoyu Wang [aut]

TwoPhaseInd_1.1.2.tar.gz
TwoPhaseInd_1.1.2.tar.gz(r-4.5-noble)TwoPhaseInd_1.1.2.tar.gz(r-4.4-noble)
TwoPhaseInd_1.1.2.tgz(r-4.4-emscripten)TwoPhaseInd_1.1.2.tgz(r-4.3-emscripten)
TwoPhaseInd.pdf |TwoPhaseInd.html✨
TwoPhaseInd/json (API)

# Install 'TwoPhaseInd' in R:

install.packages('TwoPhaseInd', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

acodata - A dataset from the STEP trial to study the interactions between gene and vaccine on HIV infection
whiBioMarker - An example dataset to demostrate the usage of MELE and SPMLE

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

9 exports 0.00 score 3 dependencies 11 scripts 215 downloads

Last updated 3 years agofrom:d4627e4739. Checks:OK: 2. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Aug 26 2024
R-4.5-linux-x86_64	OK	Aug 26 2024

Exports:aco1arm aco2arm acoarm caseonly char2num mele remove_missingdata remove_rarevariants spmle

Dependencies:lattice Matrix survival

TwoPhaseInd

Rendered fromTwoPhaseInd.Rnwusingutils::Sweaveon Aug 26 2024.

Last update: 2022-02-16
Started: 2016-01-29

Citation

Readme and manuals

Help Manual

Help page	Topics
A function to estimate parameters in augmented case-only designs, the genotype is ascertained for a random subcohort from the active treatment arm or the placebo arm.	aco1arm
A function to estimate parameters in Cox proportional hazards model using augmented case-only designs, the genotype is ascertained for a random subcohort from both the active treatment arm and the placebo arm (case-cohort sampling) or a case-control sample in both arms.	aco2arm
A function to estimate parameters in Cox proportional hazard models by augmented case-only designs for randomized clinical trials with failure time endpoints.	acoarm
A dataset from the STEP trial to study the interactions between gene and vaccine on HIV infection	acodata
A function to deal with case-only designs	caseonly
A function used in acoarm to transform categorical variable to integers	char2num
function to compute the maximum estimated likelihood estimator	mele
A function used in acoarm to remove missing data	remove_missingdata
A function used in spmle and acoarm to remove rare-variant covariates	remove_rarevariants
function to compute the semiparametric maximum likelihood estimator	spmle
An example dataset to demostrate the usage of MELE and SPMLE	whiBioMarker