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LEGIT
View on CRAN: Click
here
Download and install LEGIT package within the R console
Install from CRAN:
install.packages("LEGIT")
Install from Github:
library("remotes")
install_github("cran/LEGIT")
Install by package version:
library("remotes")
install_version("LEGIT", "1.4.1")
Attach the package and use:
library("LEGIT")
Maintained by
Alexia Jolicoeur-Martineau
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.LEGIT . LEGIT results . LEGIT.pdf . Latent Environmental & Genetic InTeraction (LEGIT) modelling . LEGIT_1.4.1.tar.gz . LEGIT_1.4.1.zip . LEGIT_1.4.1.zip . LEGIT_1.4.1.zip . LEGIT_1.4.1.tgz . LEGIT_1.4.1.tgz . LEGIT_1.4.1.tgz . LEGIT_1.4.1.tgz . LEGIT_1.4.1.tgz . LEGIT_1.4.1.tgz . LEGIT archive . https://CRAN.R-project.org/package=LEGIT .
First Published: 2017-02-13
Latest Update: 2022-01-11
Description:
Constructs genotype x environment interaction (GxE) models where
G is a weighted sum of genetic variants (genetic score) and E is a weighted
sum of environments (environmental score) using the alternating optimization algorithm
by Jolicoeur-Martineau et al. (2017) . This approach has greatly
enhanced predictive power over traditional GxE models which include only a single
genetic variant and a single environmental exposure. Although this approach was
originally made for GxE modelling, it is flexible and does not require the use of
genetic and environmental variables. It can also handle more than 2 latent variables
(rather than just G and E) and 3-way interactions or more. The LEGIT model produces
highly interpretable results and is very parameter-efficient thus it can even be
used with small sample sizes (n < 250). Tools to determine the type of interaction
(vantage sensitivity, diathesis-stress or differential susceptibility), with any
number of genetic variants or environments, are available . The
software can now produce mixed-effects LEGIT models through the lme4 package.
How to cite:
Alexia Jolicoeur-Martineau (2017). LEGIT: Latent Environmental & Genetic InTeraction (LEGIT) Model. R package version 1.4.1, https://cran.r-project.org/web/packages/LEGIT. Accessed 01 Apr. 2025.
Previous versions and publish date:
1.0.0 (2017-02-13 23:59), 1.0.1 (2017-03-24 06:37), 1.0.2 (2017-04-03 01:34), 1.0.3 (2017-04-10 00:14), 1.0.4 (2017-04-17 23:36), 1.1.0 (2017-05-11 07:58), 1.1.1 (2017-05-22 00:59), 1.2.0 (2017-12-08 22:56), 1.2.1 (2018-02-07 18:14), 1.2.2 (2018-06-21 22:57), 1.2.3 (2019-05-20 00:30), 1.3.1 (2019-08-30 01:20), 1.3 (2019-07-26 14:20), 1.4.0 (2022-01-11 23:52)
Other packages that cited LEGIT R package
View LEGIT citation profile
Other R packages that LEGIT depends,
imports, suggests or enhances
Complete documentation for LEGIT
Functions, R codes and Examples using
the LEGIT R package
Some associated functions: GxE_interaction_RoS . GxE_interaction_test . IMLEGIT . IMLEGIT_cv . IMLEGIT_net . IMLEGIT_to_LEGIT . LEGIT . LEGIT_cv . LEGIT_to_IMLEGIT . backward_step . backward_step_IM . best_model.elastic_net_var_select . best_model . bootstrap_var_select . elastic_net_var_select . example_2way . example_2way_lme4 . example_3way . example_3way_3latent . example_with_crossover . forward_step . forward_step_IM . genetic_var_select . longitudinal_folds . nes_var_select . plot.LEGIT . plot.elastic_net_var_select . predict.IMLEGIT . predict.LEGIT . r1nes_var_select . rGE.IMLEGIT . rGE.LEGIT . rGE . stepwise_search . stepwise_search_IM . summary.IMLEGIT . summary.LEGIT . summary.elastic_net_var_select .
Some associated R codes: LEGIT.R . rGE.R . Full LEGIT package functions and examples
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