Valdar Lab Software

Methods development

This page is under construction. If you can't find what you're looking for check back for updates or send me an email.

Name Description More info
Bagphenotype Mapping QTLs in populations descended from known founders [Note: this is legacy code and no longer maintained. For single locus mapping use BAGPIPE] article website
Bagpipe Mapping QTLs in populations descended from known founders website
BayesDiallel An R package for Bayesian analysis of diallel crosses of inbred strains article website
Diploffect Bayesian modeling of haplotype effects in multiparent populations article website
FReMA LASSO-based fractional resample model averaging, useful for reprioritizing SNP associations at GWAS loci (successor to LLARRMA) article website
LLARRMA LASSO-based resample model averaging, useful for reprioritizing genetic associations in GWAS hit regions article website
Prephappy Preparation of input files for HAPPY website
Scorecons Scoring residue conservation from a multiple sequence alignment article (errata) website

Miscellaneous code

Name Description More info
R/cmdline An R package for simple parsing of command line arguments current tar.gz