biotmle: Targeted Learning with Moderated Statistics for Biomarker Discovery

Tools for differential expression biomarker discovery based on microarray and next-generation sequencing data that leverage efficient semiparametric estimators of the average treatment effect for variable importance analysis. Estimation and inference of the (marginal) average treatment effects of potential biomarkers are computed by targeted minimum loss-based estimation, with joint, stable inference constructed across all biomarkers using a generalization of moderated statistics for use with the estimated efficient influence function. The procedure accommodates the use of ensemble machine learning for the estimation of nuisance functions.

Package details

AuthorNima Hejazi [aut, cre, cph] (<>), Alan Hubbard [aut, ths] (<>), Mark van der Laan [aut, ths] (<>), Weixin Cai [ctb] (<>)
Bioconductor views DifferentialExpression GeneExpression ImmunoOncology Microarray RNASeq Regression Sequencing
MaintainerNima Hejazi <>
Licensefile LICENSE
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


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biotmle documentation built on Nov. 8, 2020, 5:10 p.m.