cit: Causal Inference Test

A likelihood-based hypothesis testing approach is implemented for assessing causal mediation. For example, it could be used to test for mediation of a known causal association between a DNA variant, the 'instrumental variable', and a clinical outcome or phenotype by gene expression or DNA methylation, the potential mediator. Another example would be testing mediation of the effect of a drug on a clinical outcome by the molecular target. The hypothesis test generates a p-value or permutation-based FDR value with confidence intervals to quantify uncertainty in the causal inference. The outcome can be represented by either a continuous or binary variable, the potential mediator is continuous, and the instrumental variable can be continuous or binary and is not limited to a single variable but may be a design matrix representing multiple variables.

AuthorJoshua Millstein
Date of publication2016-11-15 07:16:48
MaintainerJoshua Millstein <joshua.millstein@usc.edu>
LicenseArtistic-2.0
Version2.1

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Files in this package

cit
cit/src
cit/src/Makevars
cit/src/citconlog3_perm_v5.cpp
cit/src/logisticfunc.h
cit/src/citconlog3cvr_perm_v6.cpp
cit/src/citconlog2cvr_v3.cpp
cit/src/Makevars.win
cit/src/citconlog2_v3.cpp
cit/src/logisticfunc.cpp
cit/NAMESPACE
cit/R
cit/R/C_CIT_V13.R
cit/MD5
cit/DESCRIPTION
cit/man
cit/man/fdr.q.perm.Rd cit/man/cit.bp.Rd cit/man/fdr.cit.Rd cit/man/cit-package.Rd cit/man/iuq.Rd cit/man/fdr.od.Rd cit/man/fdr.q.para.Rd cit/man/cit.cp.Rd cit/man/linreg.Rd

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