EnrichmentNetwork

Full name SMRUCC.genomics.Analysis.HTS.GSEA.KnowledgeBase.Metabolism.EnrichmentNetwork Assembly SMRUCC.genomics.Analysis.HTS.GSEA.KnowledgeBase.Extensions Members 4

Model of network based enrichment analysis(KEGG pathway targetted)

00 Remarks

factors for the enrichment data analysis includes the network topology impact factors, example likes: degree centroid/relative betweeness, etc

01 Syntax

SMRUCC.genomics.Analysis.HTS.GSEA.KnowledgeBase.Metabolism.EnrichmentNetwork

02 Methods

Name	Overloads	Summary
KEGGModels	2	直接基于已有的物种KEGG数据信息进行富集计算数据集的创建
getUniqueModels	1	models collection may contains empty data or duplicated data, needs to do data filter at here at first!
CreateGSEASet	1	reconstruct of the kegg pathway and then create gsea background dataset for biodeep package.

03 Members

method KEGGModels overload 2 #

KEGGModels(Map(), Boolean, Dictionary(Of String, ReactionTable()), String, Boolean, Boolean)

直接基于已有的物种KEGG数据信息进行富集计算数据集的创建

method KEGGModels #

KEGGModels(Pathway(), Boolean, Dictionary(Of String, ReactionTable()), String, Boolean, Boolean)

直接基于已有的物种KEGG数据信息进行富集计算数据集的创建

method getUniqueModels #

getUniqueModels``1(``0())

models collection may contains empty data or duplicated data, needs to do data filter at here at first!

Type Parameters

Name	Description
`T`

method CreateGSEASet #

CreateGSEASet(PtfFile, Dictionary(Of String, String), Dictionary(Of String, ReactionTable()), String, Boolean, Boolean, Dictionary(Of String, ReactionClassTable()))

reconstruct of the kegg pathway and then create gsea background dataset for biodeep package.

Parameters

Name	Type	Description
`maps`	`PtfFile`	-