hapassoc: Inference of Trait Associations with SNP Haplotypes and Other Attributes using the EM Algorithm

The following R functions are used for inference of trait associations with haplotypes and other covariates in generalized linear models. The functions are developed primarily for data collected in cohort or cross-sectional studies. They can accommodate uncertain haplotype phase and handle missing genotypes at some SNPs.

Install the latest version of this package by entering the following in R:
install.packages("hapassoc")
AuthorK. Burkett <kburkett@uottawa.ca>, B. McNeney <mcneney@sfu.ca>, J. Graham <jgraham@stat.sfu.ca>, with code for case-control data contributed by Zhijian Chen <z11chen@math.uwaterloo.ca>
Date of publication2015-05-11 00:22:30
MaintainerK. Burkett <kburkett@uottawa.ca>
LicenseGPL-2
Version1.2-8
http://stat.sfu.ca/statgen/research/hapassoc.html

View on CRAN

Files

inst
inst/CITATION
inst/ChangeLog
inst/doc
inst/doc/hapassoc.R
inst/doc/hapassoc.Rnw
inst/doc/hapassoc.pdf
src
src/getWts.c
src/tapply_sum.c
NAMESPACE
data
data/hypoDat.txt.gz
data/hypoDatGeno.txt.gz
R
R/hapassoc.R R/RecodeHaplos.R R/summaryHap.R R/logLik_hapassoc.R R/PreHap.R R/zzz.R
vignettes
vignettes/hapassoc.Rnw
vignettes/burkett_biblio.bib
vignettes/jsslogo.jpg
MD5
build
build/vignette.rds
DESCRIPTION
man
man/hypoDat.Rd man/summaryHap.Rd man/anova_hapassoc.Rd man/PreHap.Rd man/hypoDatGeno.Rd man/hapassoc.Rd man/logLik_hapassoc.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.