GGBase infrastructure for genetics of gene expression package GGtools


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Documentation for package ‘GGBase’ version 3.28.0

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allsnps create a package with a decomposed smlSet instance from a unified smlSet instance, to reduce memory footprints
casting Class '"rsid"'
clipPCs transformations of expression data in smlSet instances
clipPCs-method transformations of expression data in smlSet instances
combine-method Class '"smlSet"'
dropMonomorphies Filter genotype contents of an smlSet according to certain SNP allele frequency features.
exprs-method Class '"smlSet"'
externalize create a package with a decomposed smlSet instance from a unified smlSet instance, to reduce memory footprints
genesym Class '"rsid"'
genesym-class Class '"rsid"'
genesym-method Class '"rsid"'
getSS construct an smlSet instance from existing resources
GTFfilter Filter genotype contents of an smlSet according to certain SNP allele frequency features.
MAFfilter Filter genotype contents of an smlSet according to certain SNP allele frequency features.
make_smlSet construct an smlSet instance from existing resources
nsFilter-method Class '"smlSet"'
permEx Class '"smlSet"'
permEx-method Class '"smlSet"'
plot_EvG display the association between expression values and genotypes in an smlSet instance
plot_EvG-method display the association between expression values and genotypes in an smlSet instance
probeId Class '"rsid"'
probeId-class Class '"rsid"'
probeId-method Class '"rsid"'
regressOut transformations of expression data in smlSet instances
rsid Class '"rsid"'
rsid-class Class '"rsid"'
rsid-method Class '"rsid"'
smList Class '"smlSet"'
smList-method Class '"smlSet"'
smlSet-class Class '"smlSet"'
[-method Class '"smlSet"'