Package: DRviaSPCN 0.1.5

DRviaSPCN: Drug Repurposing in Cancer via a Subpathway Crosstalk Network

A systematic biology tool was developed to repurpose drugs via a subpathway crosstalk network. The operation modes include 1) calculating centrality scores of SPs in the context of gene expression data to reflect the influence of SP crosstalk, 2) evaluating drug-disease reverse association based on disease- and drug-induced SPs weighted by the SP crosstalk, 3) identifying cancer candidate drugs through perturbation analysis. There are also several functions used to visualize the results.

Authors:Junwei Han [aut, cre, cph], Jiashuo Wu [aut]

DRviaSPCN_0.1.5.tar.gz
DRviaSPCN_0.1.5.zip(r-4.5)DRviaSPCN_0.1.5.zip(r-4.4)DRviaSPCN_0.1.4.zip(r-4.3)
DRviaSPCN_0.1.5.tgz(r-4.5-any)DRviaSPCN_0.1.5.tgz(r-4.4-any)DRviaSPCN_0.1.4.tgz(r-4.3-any)
DRviaSPCN_0.1.5.tar.gz(r-4.5-noble)DRviaSPCN_0.1.5.tar.gz(r-4.4-noble)
DRviaSPCN_0.1.5.tgz(r-4.4-emscripten)DRviaSPCN_0.1.4.tgz(r-4.3-emscripten)
DRviaSPCN.pdf |DRviaSPCN.html✨
DRviaSPCN/json (API)

# Install 'DRviaSPCN' in R:
install.packages('DRviaSPCN', repos = c('https://hanjunwei-lab.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • envData - An environment variable which includes some example data

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

2.00 score 5 scripts 315 downloads 8 exports 148 dependencies

Last updated 2 months agofrom:e98d94437a. Checks:6 OK, 2 FAILURE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 13 2025
R-4.5-winOKFeb 13 2025
R-4.5-macOKFeb 13 2025
R-4.5-linuxOKFeb 13 2025
R-4.4-winOKFeb 13 2025
R-4.4-macOKFeb 13 2025
R-4.3-winOUTDATEDDec 11 2024
R-4.3-macOUTDATEDDec 11 2024

Exports:CalCentralityScoreDisease2SPheatmapDrug2SPheatmapgetDEscoreGetExampleOptimaldrugsPackageLoadedplotSPW

Dependencies:abindannotateAnnotationDbiapeaplotaskpassassortheadbeachmatBHBiobaseBiocFileCacheBiocGenericsBiocParallelBiocSingularBiostringsbitbit64blobcachemcliclusterProfilercodetoolscolorspacecowplotcpp11crayoncurldata.tableDBIdbplyrDelayedArrayDelayedMatrixStatsdigestDOSEdplyrenrichplotfansifarverfastmapfastmatchfgseafilelockformatRfsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggforceggfunggnewscaleggplot2ggplotifyggrepelggtangleggtreeglueGO.dbGOSemSimgraphgridGraphicsGSEABasegsonGSVAgtableh5mreadHDF5ArrayhttrigraphIRangesirlbaisobandjsonliteKEGGRESTlabelinglambda.rlatticelazyevallifecyclemagickmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmeopensslpatchworkpheatmappillarpkgconfigplogrplyrpngpolyclippurrrqvalueR.methodsS3R.ooR.utilsR6RColorBrewerRcppRcppEigenreshape2rhdf5rhdf5filtersRhdf5librjsonrlangRSQLitersvdS4ArraysS4VectorsScaledMatrixscalesscatterpieSingleCellExperimentsnowSparseArraysparseMatrixStatsSpatialExperimentstringistringrSummarizedExperimentsyssystemfontstibbletidyrtidyselecttidytreetreeiotweenrUCSC.utilsutf8vctrsviridisLitewithrXMLxtableXVectoryulab.utils

DRviaSPCN User Guide

Jiashuo Wu, Junwei Han

Rendered fromDRviaSPCN.Rmdusingknitr::rmarkdownon Feb 13 2025.

Last update: 2025-01-09
Started: 2021-12-09