ASGSCA: Association Studies for multiple SNPs and multiple traits using Generalized Structured Equation Models

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The package provides tools to model and test the association between multiple genotypes and multiple traits, taking into account the prior biological knowledge. Genes, and clinical pathways are incorporated in the model as latent variables. The method is based on Generalized Structured Component Analysis (GSCA).

Author
Hela Romdhani, Stepan Grinek , Heungsun Hwang and Aurelie Labbe.
Date of publication
None
Maintainer
Hela Romdhani <hela.romdhani@mcgill.ca>
License
GPL-3
Version
1.8.0

View on Bioconductor

Man pages

ASGSCA-package
Association Studies for multiple SNPs and multiple traits...
B0
Matrix indicating connections between the latent variables...
GenPhen
Dataset to test GSCAestim and GSCA functions.
GSCA
Association test for multiple genotypes and multiple traits...
GSCAestim
Structural Equation Models for multiple genotypes and...
QCAHS
Dataset used in the vignette.
ResQCAHS
A list containing the results obtained for the QCAHS dataset.
W0
Matrix indicating connections between the observed variables...

Files in this package

ASGSCA/DESCRIPTION
ASGSCA/NAMESPACE
ASGSCA/R
ASGSCA/R/GSCAestim.R
ASGSCA/R/GSCAtest.R
ASGSCA/build
ASGSCA/build/vignette.rds
ASGSCA/data
ASGSCA/data/B0.rda
ASGSCA/data/GenPhen.rda
ASGSCA/data/QCAHS.rda
ASGSCA/data/ResQCAHS.rda
ASGSCA/data/W0.rda
ASGSCA/inst
ASGSCA/inst/NEWS.Rd
ASGSCA/inst/doc
ASGSCA/inst/doc/ASGSCA.R
ASGSCA/inst/doc/ASGSCA.Rnw
ASGSCA/inst/doc/ASGSCA.pdf
ASGSCA/man
ASGSCA/man/ASGSCA-package.Rd
ASGSCA/man/B0.Rd
ASGSCA/man/GSCA.Rd
ASGSCA/man/GSCAestim.Rd
ASGSCA/man/GenPhen.Rd
ASGSCA/man/QCAHS.Rd
ASGSCA/man/ResQCAHS.Rd
ASGSCA/man/W0.Rd
ASGSCA/vignettes
ASGSCA/vignettes/ASGSCA-concordance.tex
ASGSCA/vignettes/ASGSCA.Rnw
ASGSCA/vignettes/ASGSCA.Rnw.sav
ASGSCA/vignettes/exp.jpg
ASGSCA/vignettes/exp2.jpg
ASGSCA/vignettes/fancyvrb.sty
ASGSCA/vignettes/path.jpg
ASGSCA/vignettes/path0.jpg
ASGSCA/vignettes/pathpart.jpg
ASGSCA/vignettes/pathpart1.jpg
ASGSCA/vignettes/zi4.sty.txt