Man pages for pathfindR
Pathway Enrichment Analysis Utilizing Active Subnetworks

biocarta_genesBioCarta Gene Sets
biocarta_pathwaysBioCarta Pathway Descriptions
calculate_pwdCalculate Pairwise Distances Between Given Pathways
calculate_pw_scoresCalculate Pathway Scores for Each Subject
choose_clustersCluster Pathways and Partition the Dendrogram
custom_resultCustom Gene Set Enrichment Results
enrichmentPerform Enrichment Analysis
enrichment_chartPlot the Bubble Chart of Enrichment Results
go_bp_genesGene Ontology - Biological Process Ontology Gene Sets
go_bp_pathwaysGene Ontology - Biological Process Ontology Descriptions
go_cc_genesGene Ontology - Cellular Component Ontology Gene Sets
go_cc_pathwaysGene Ontology - Cellular Component Ontology Descriptions
go_mf_genesGene Ontology - Molecular Function Ontology Gene Sets
go_mf_pathwaysGene Ontology - Molecular Function Ontology Descriptions
input_processingProcess Input
input_testingInput Testing
kegg_genesKEGG Gene Sets
kegg_pathwaysKEGG Pathway Descriptions
parseActiveSnwSearchParse Active Subnetwork Search Output File
pathfindRpathfindR: A package for Pathway Enrichment Analysis...
pathmapAnnotate Involved Genes In Pathways and Visualize Pathways
plot_scoresPlot the Heatmap of Pathway Scores
RA_clusteredExample Output for the pathfindR Clustering Workflow -...
RA_exp_matExample Input for pathfindR - pathway z-scores
RA_inputExample Input for the pathfindR Enrichment Workflow -...
RA_outputExample Output for the pathfindR Enrichment Workflow -...
reactome_genesReactome Gene Sets
reactome_pathwaysReactome Pathway Descriptions
return_pin_pathReturn The Path to Given Protein-Protein Interaction Network...
run_pathfindRWrapper Function for pathfindR Workflow
pathfindR documentation built on Oct. 5, 2018, 1:03 a.m.