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.

Version: 2.1
Published: 2016-11-15
Author: Joshua Millstein
Maintainer: Joshua Millstein <joshua.millstein at>
License: Artistic-2.0
NeedsCompilation: yes
SystemRequirements: gsl (with development libraries)
CRAN checks: cit results


Reference manual: cit.pdf
Package source: cit_2.1.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
OS X El Capitan binaries: r-release: cit_2.1.tgz
OS X Mavericks binaries: r-oldrel: cit_2.1.tgz
Old sources: cit archive


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