GenCAT: Genetic Class Association Testing

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Implementation of the genetic class level association testing (GenCAT) method from SNP level association data. Refer to: "Qian J, Nunez S, Reed E, Reilly MP, Foulkes AS (2016) <DOI:10.1371/journal.pone.0148218> A Simple Test of Class-Level Genetic Association Can Reveal Novel Cardiometabolic Trait Loci. PLoS ONE 11(2): e0148218".

Author
Eric Reed, Sara Nunez, Jing Qian, Andrea Foulkes
Date of publication
2016-06-10 23:12:38
Maintainer
Eric Reed <reeder@bu.edu>
License
GPL-2
Version
1.0.3

View on CRAN

Man pages

CardioData
GWAS data from CARDIoGRAM on CAD
CardioMapped
CARDIoGRAM data mapped to classes
coords
Protein coding gene coordinates (GRCh37/hg19)
GenCAT
Running GenCAT
GenCAT_manhattan
Create Manhattan Plot of GenCAT Results
GenCAT-package
\Sexpr[results=rd,stage=build]{tools:::Rd_package_title("GenCAT")}
geno
Genotype Data
map2class
Mapping SNPs to Classes

Files in this package

GenCAT
GenCAT/inst
GenCAT/inst/doc
GenCAT/inst/doc/GenCAT-vignette.html
GenCAT/inst/doc/GenCAT-vignette.Rmd
GenCAT/inst/doc/GenCAT-vignette.R
GenCAT/NAMESPACE
GenCAT/data
GenCAT/data/geno.RData
GenCAT/data/CardioData.RData
GenCAT/data/CardioMapped.rda
GenCAT/data/coords.RData
GenCAT/data/datalist
GenCAT/R
GenCAT/R/GenCAT_functions.R
GenCAT/vignettes
GenCAT/vignettes/GenCAT-vignette.Rmd
GenCAT/MD5
GenCAT/build
GenCAT/build/vignette.rds
GenCAT/build/partial.rdb
GenCAT/DESCRIPTION
GenCAT/man
GenCAT/man/GenCAT.Rd
GenCAT/man/map2class.Rd
GenCAT/man/coords.Rd
GenCAT/man/CardioData.Rd
GenCAT/man/GenCAT_manhattan.Rd
GenCAT/man/geno.Rd
GenCAT/man/GenCAT-package.Rd
GenCAT/man/CardioMapped.Rd