Provides path_chain class and functions, which facilitates loading and saving 
             directory structure in YAML configuration files via 'config' package. 
             The file structure you created during exploration can be transformed 
             into legible section in the config file, and then easily loaded for further usage.

Provides access to large-scale genomics data from the South Dakota 
    State University's bioinformatics database, a unified platform for pathway 
    analysis of over 13,000 organisms. It includes various gene mappings, gene 
    characteristics, and pathway mapping data from KEGG, GOBP, GOCC, and many 
    more pathway databases. Also provides various helper functions for 
    processing RNA-Seq data for differential expression analysis and pathway 
    enrichment analysis, occasionally sourced from code from Integrated 
    Differential Expression & Pathway analysis (iDEP), developed by Ge, S.X., 
    Son, E.W. & Yao, R. (2018) <doi:10.1186/s12859-018-2486-6>.

Enrichment analysis enables researchers to uncover mechanisms 
    underlying a phenotype. However, conventional methods for enrichment 
    analysis do not take into account protein-protein interaction information, 
    resulting in incomplete conclusions. 'pathfindR' is a tool for enrichment 
    analysis utilizing active subnetworks. The main function identifies active 
    subnetworks in a protein-protein interaction network using a user-provided 
    list of genes and associated p values. It then performs enrichment analyses 
    on the identified subnetworks, identifying enriched terms (i.e. pathways or, 
    more broadly, gene sets) that possibly underlie the phenotype of interest.
    'pathfindR' also offers functionalities to cluster the enriched terms and 
    identify representative terms in each cluster, to score the enriched terms 
    per sample and to visualize analysis results. The enrichment, clustering and 
    other methods implemented in 'pathfindR' are described in detail in 
    Ulgen E, Ozisik O, Sezerman OU. 2019. 'pathfindR': An R Package for 
    Comprehensive Identification of Enriched Pathways in Omics Data Through 
    Active Subnetworks. Front. Genet. <doi:10.3389/fgene.2019.00858>.