Entry: HM2rac
Aliases: HM2rac thinHM2rac thinHM2meta df2snpMeta getRare countRare
Keywords: models
Description: compute rare allele count from a hapmap file
URL: ../../../library/GGtools/html/HM2rac.html

Entry: HMworkflow
Aliases: HMworkflow
Keywords: models
Description: function to bind together HapMap genotyping results and expression data
URL: ../../../library/GGtools/html/HMworkflow.html

Entry: Strains2rac
Aliases: Strains2rac INBREDSworkflow INB34snpMeta
Keywords: models
Description: convert a Wellcome 'Strains' genotyping file to rare allele count form
URL: ../../../library/GGtools/html/Strains2rac.html

Entry: geneLocs
Aliases: geneLocs geneLocs_hsa geneLocs_mmu
Keywords: models
Description: gene metadata from NCBI
URL: ../../../library/GGtools/html/geneLocs.html

Entry: genoStrings
Aliases: genoStrings
Keywords: models
Description: create a character vector of genotype value strings
URL: ../../../library/GGtools/html/genoStrings.html

Entry: make_racExSet
Aliases: make_racExSet rb20M Sa20M
Keywords: models
Description: create a racExSet from simpler constituents
URL: ../../../library/GGtools/html/make_racExSet.html

Entry: oGtypeExSet-class
Aliases: oGtypeExSet-class coerce,oGtypeExSet,ExpressionSet-method initialize,oGtypeExSet-method show,oGtypeExSet-method addAnno getSNPindices tx_rsnum
Keywords: classes
Description: Class "oGtypeExSet" ~~~
URL: ../../../library/GGtools/html/oGtypeExSet-class.html

Entry: plot_EvG
Aliases: plot_EvG
Keywords: models
Description: plot expression vs genotype
URL: ../../../library/GGtools/html/plot_EvG.html

Entry: racExSet-class
Aliases: racExSet-class racExSet genesym-class genesym chr20GGdem gse2031GG hgfocusSYMMEMO mgu74av2SYMMEMO snpID snpID-class getpsid snps,racExSet-method snpNames,racExSet-method racAssays,racExSet-method oneFit,racExSet-method litsn exclMono oneFit exprs,racExSet-method initialize,racExSet-method litex pdd racAssays snpNames SNPalleles rarebase SNPalleles,racExSet-method rarebase,racExSet-method oneFit,racExSet,genesym,character,function-method oneFit,racExSet,character,character,function-method oneFit,racExSet,list,character,function-method oneFit,racExSet,list,formula,function-method [,racExSet-method [,snpMeta,ANY,ANY,ANY-method [,racExSet,ANY,ANY,ANY-method show,racExSet-method snps5PrimeTo snps3PrimeTo snpsNear
Keywords: classes
Description: Class "racExSet" for combining RareAlleleCount representations of SNPs, gene expression data, and other phenotype data
URL: ../../../library/GGtools/html/racExSet-class.html

Entry: snpMeta-class
Aliases: snpMeta-class snpMetaWhole-class snpMetaWhole wrapSNPmetaWh chr20meta [,snpMeta-method chromosome,snpMeta-method coerce,snpMeta,data.frame-method dim,snpMeta-method nrow,snpMeta-method show,snpMeta-method
Keywords: classes
Description: Class "snpMeta" -- HapMap (or Wellcome INBREDS) -based metadata structures for SNPs
URL: ../../../library/GGtools/html/snpMeta-class.html

Entry: snpScreen
Aliases: snpScreenResult-class show,snpScreenResult-method snpScreen,racExSet,snpMeta,genesym,formula,function,numeric-method snpScreen,racExSet,snpMeta,genesym,formula,function,missing-method snpScreen extract_p fastAGM fastHET plot_mlp
Keywords: models
Description: compute model fits over a sequence of SNPs
URL: ../../../library/GGtools/html/snpScreen.html

Entry: snps
Aliases: snps
Keywords: models
Description: accessor for genotype data in a ggExprSet
URL: ../../../library/GGtools/html/snps.html
