DESCRIPTION

Package: PICH
Type: Package
Title: Priority Index Approach to Clonal Hematopoiesis Therapeutics
Version: 1.0.0
Date: 2024-3-25
Authors@R: c(person("Hai", "Fang", email="fh12355@rjh.com.cn", role=c("aut","cre")))
Maintainer: Hai Fang <fh12355@rjh.com.cn>
Depends: R (>= 4.2.0), igraph, ggplot2
Imports: dplyr, forcats, GenomicRanges, ggnetwork, ggrepel, Matrix, osfr, purrr, stats, stringr, tibble, tidyr, pbapply, curl, ggraph
Suggests: foreach, grid, gridExtra, RColorBrewer, ggupset, graphics, grDevices, utils, ggbio, GenomeInfoDb, doParallel, scales, supraHex
Description: This package is designed to identify therapeutic candidates (both therapeutic targets and repurposed drugs) based on multi-layered datasets related to clonal hematopoiesis (defined as the clonal expansion of the blood stem cell and its progeny).
Collate:
    'ClassMethod-PICH.r'
    'oRDS.r'
    'oDefineNet.r'
    'oIG2TB.r'
    'oTB2IG.r'
    'oNetInduce.r'
    'oPierAnno.r'
    'oPierGenes.r'
    'oPier.r'
    'oRWR.r'
    'oCheckParallel.r'
    'oSymbol2GeneID.r'
    'oPierMatrix.r'
    'oSparseMatrix.r'
    'oPierManhattan.r'
    'oSEAadv.r'
    'oSEA.r'
    'oSEAextract.r'
    'oSEAballoon.r'
    'oColormap.r'
    'oCombineNet.r'
    'oPierSubnet.r'
    'oSubneterGenes.r'
    'oLayout.r'
    'oVisEvidenceAdv.r'
    'oVisEvidence.r'
    'oGGnetwork.r'
    'oPieplot.r'
    'oSEAupset.r'
    'oDAGinduce.r'
    'oSEAggraph.r'
    'oGGraph.r'
    'oRepurpose.r'
    'oHeatmap.r'
    'oAttack.r'
    'oUpsetAdv.r'
    'oPvalAggregate.r'
    'oDAGlevel.r'
    'oDAGroot.r'
    'oDAGreverse.r'
    'oNetPipeline.r'
    'oBUMfit.r'
    'oBUMscore.r'
    'oFDRscore.r'
    'oNetFind.r'
    'oNetConfidence.r'
    'visNet.r'
    'visDAG.r'
License: GPL-2
biocViews: SystemsBiology, GeneTarget, Pathways, Network