tfs2Enrichr: Query different databases to find enriched proceses.

In GianlucaMattei/methyl.O: Annotate, Score and Visualize Differentially Methylated Regions

Query different databases to find enriched proceses.

Description

Query TF's targeted genes in order to find enriched proceses.

Usage

tfs2Enrichr(
  associatedTFs2Expr,
  logfc.thr = 1,
  stat.filter = "P.value",
  stat.thr = 0.01,
  db = NULL
)

Arguments

associatedTFs2Expr	data.frame. Corresponding to resulting data.frame from associateTFs2Exprs().
logfc.thr	numeric value indicating logFC threshold. Default = 1.
stat.filter	character indicating which type of statistics use for filtering results. Accepted values: 'P.value' or 'Adjusted.P.value'. Default 'P.value'.
stat.thr	numeric value indicating the threshold to use for selcted statistical test. Default 0.01.
db	vector of characters indicating DBs to query. Default c("ClinVar_2019", "OMIM_Disease", "Elsevier_Pathway_Collection", "MSigDB_Hallmark_2020", "MSigDB_Oncogenic_Signatures", "GO_Biological_Process_2018", "Human_Phenotype_Ontology", "KEGG_2016", "NCI-Nature_2016", "Panther_2016", "Reactome_2016", "WikiPathways_2019_Human")

Value

data.frame with enriched processes

GianlucaMattei/methyl.O documentation built on Sept. 12, 2023, 11:53 p.m.