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cit
Causal Inference Test
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Download and install cit package within the R console
Install from CRAN:
install.packages("cit")
Install from Github:
library("remotes")
install_github("cran/cit") Install by package version:
library("remotes")
install_version("cit", "2.3.2") Attach the package and use:
library("cit")
Maintained by
Joshua Millstein
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2011-09-07
Latest Update: 2024-06-28
Description:
A likelihood-based hypothesis testing approach is implemented for
assessing causal mediation. Described in Millstein, Chen, and Breton (2016),
, 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.
How to cite:
Joshua Millstein (2011). cit: Causal Inference Test. R package version 2.3.2, https://cran.r-project.org/web/packages/cit. Accessed 29 Oct. 2026.
Previous versions and publish date:
(2026-07-09 07:26), 1.0 (2011-09-07 08:38), 1.1 (2011-12-10 10:13), 1.2 (2013-12-20 07:54), 1.3 (2014-12-10 08:06), 1.4 (2015-03-10 19:47), 1.5 (2015-10-25 08:55), 1.7 (2015-10-28 19:47), 1.8 (2016-01-09 14:03), 1.9 (2016-01-10 17:28), 2.0 (2016-03-07 22:44), 2.1 (2016-11-15 07:16), 2.2 (2017-12-15 21:46), 2.3.1 (2021-05-25 09:20)
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Some associated functions: cit-package . cit.bp . cit.cp . fdr.cit . fdr.od . fdr.q.para . fdr.q.perm . iuq . linreg .
Some associated R codes: C_CIT.R . Full cit package functions and examples
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