krsa_enrichr: Runs enrichr analysis using a list of PamChip peptide IDs or...

In CogDisResLab/KRSA: KRSA: Kinome Random Sampling Analyzer

Runs enrichr analysis using a list of PamChip peptide IDs or genes

Description

This function takes in a list of PamChip peptide IDs or genes and geneset libraries names and connects to Enrichr api and returns enriched terms the geneset library name from Enrichr and userListId (id created by enrichr api) sand retruns tidy dataframe of all geneset terms in that library

Usage

krsa_enrichr(
  peptides = NULL,
  genes = NULL,
  libs = c("GO_Biological_Process_2021", "GO_Cellular_Component_2021",
    "GO_Molecular_Function_2021", "WikiPathway_2021_Human", "Reactome_2016",
    "KEGG_2021_Human", "BioPlanet_2019")
)

Arguments

peptides	a vector of PamChip peptide IDs
genes	(optional) a vector of HGNC symbols. This will override the list of peptides
libs	geneset libraries names from Enrichr. default: c("GO_Biological_Process_2021", "GO_Cellular_Component_2021","GO_Molecular_Function_2021", "WikiPathway_2021_Human","Reactome_2016", "KEGG_2021_Human", "BioPlanet_2019")

Value

df tidy dataframe of all geneset terms in that library

See Also

Other helper functions: enrichr_lib_call(), krsa_ce_output_kinases(), krsa_ce_output_peptides(), krsa_extractEndPoint(), krsa_extractEndPointMaxExp(), krsa_get_diff(), krsa_get_diff_byChip(), krsa_sampling(), krsa_show_peptides(), krsa_top_hits()

Examples

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CogDisResLab/KRSA documentation built on Dec. 19, 2024, 8:28 p.m.