Package for Fold-specific GO Terms Recognition

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Documentation for package ‘FoldGO’ version 1.6.0

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bggenes Background sets of genes used in examples
bggenes_hum Background sets of genes used in examples
convertToList S4 class for GAFReader object
degenes Differential expressed genes used in examples
degenes_hum Differential expressed genes used in examples
down_annotobj Precompiled objects of GeneGroups, FuncAnnotGroups classes used in examples
down_groups Precompiled objects of GeneGroups, FuncAnnotGroups classes used in examples
examdata_bg Background sets of genes used in examples
examdata_degs Differential expressed genes used in examples
examdata_objs Precompiled objects of GeneGroups, FuncAnnotGroups classes used in examples
fagroupstopgo_class S4 class for FuncAnnotGroupsTopGO object
FoldSpecTest FoldSpecTest S4 class
foldspectest_class FoldSpecTest S4 class
FuncAnnotGroupsTopGO S4 class for FuncAnnotGroupsTopGO object
GAFReader S4 class for GAFReader object
gafreader_class S4 class for GAFReader object
GeneGroups S4 class for Gene Groups
genegroups_class S4 class for Gene Groups
getAnnotation Get annotation derived from annotation file
getAnnotation-method Get annotation derived from annotation file
getFStable FoldSpecTest S4 class
getFStable-method FoldSpecTest S4 class
getGroups S4 class for Gene Groups
getGroups-method S4 class for Gene Groups
getIntNames S4 class for Gene Groups
getIntNames-method S4 class for Gene Groups
getNFStable FoldSpecTest S4 class
getNFStable-method FoldSpecTest S4 class
getQuanNumber S4 class for Gene Groups
getQuanNumber-method S4 class for Gene Groups
getRegType S4 class for Gene Groups
getRegType-method S4 class for Gene Groups
getResultList S4 class for FuncAnnotGroupsTopGO object
getResultList-method S4 class for FuncAnnotGroupsTopGO object
getResultTable FoldSpecTest S4 class
getResultTable-method FoldSpecTest S4 class
getVersion S4 class for GAFReader object
getVersion-method S4 class for GAFReader object
getWholeIntName getWholeIntName S4 method
getWholeIntName-method getWholeIntName S4 method
plot-method Fold-change specific GO Profile chart plotting
rna_seq_data Data from rna-seq experiment on auxin treatment of Arabidopsis thaliana roots
up_annotobj Precompiled objects of GeneGroups, FuncAnnotGroups classes used in examples
up_groups Precompiled objects of GeneGroups, FuncAnnotGroups classes used in examples