Package: DeepTarget 1.6.0

Trinh Nguyen

DeepTarget: Deep characterization of cancer drugs

This package predicts a drug’s primary target(s) or secondary target(s) by integrating large-scale genetic and drug screens from the Cancer Dependency Map project run by the Broad Institute. It further investigates whether the drug specifically targets the wild-type or mutated target forms. To show how to use this package in practice, we provided sample data along with step-by-step example.

Authors:Sanju Sinha [aut], Trinh Nguyen [aut, cre], Ying Hu [aut]

DeepTarget_1.6.0.tar.gz
DeepTarget_1.6.0.zip(r-4.7)DeepTarget_1.6.0.zip(r-4.6)DeepTarget_1.6.0.zip(r-4.5)
DeepTarget_1.6.0.tgz(r-4.6-any)DeepTarget_1.6.0.tgz(r-4.5-any)
DeepTarget_1.6.0.tar.gz(r-4.7-any)DeepTarget_1.6.0.tar.gz(r-4.6-any)
DeepTarget_1.6.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
DeepTarget/json (API)
NEWS

# Install 'DeepTarget' in R:
install.packages('DeepTarget', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:
  • OntargetM - An object containing a small part of the data from the Cancer Dependency Map (depmap.org) to demonstrate in DeepTarget pipeline

On BioConductor:DeepTarget-1.7.0(bioc 3.24)DeepTarget-1.6.0(bioc 3.23)

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

genetargetgenepredictionpathwaysgeneexpressionrnaseqimmunooncologydifferentialexpressiongenesetenrichmentreportwritingcrispr

4.00 score 3 scripts 253 downloads 11 exports 134 dependencies

Last updated from:fcb2a89f13 (on RELEASE_3_23). Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksERROR201
linux-devel-x86_64NOTE411
source / vignettesOK262
linux-release-x86_64NOTE313
macos-release-arm64NOTE1710
macos-oldrel-arm64NOTE222
windows-develNOTE802
windows-releaseNOTE872
windows-oldrelNOTE764
wasm-releaseOK174

Exports:computeCorDepmap2DeepTargetDMBDoInteractExpDoInteractMutantDoPWYDTRplotCorplotSimPredMaxSimPredTarget

Dependencies:abindAnnotationDbiAnnotationHubaskpassbackportsBHBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocManagerBiocParallelBiocVersionBiostringsbitbit64blobbootbroomcachemcarcarDataclicliprcodetoolscolorspacecorrplotcowplotcpp11crayoncurldata.tableDBIdbplyrdepmapDerivdoBydplyrExperimentHubfarverfastmapfastmatchfgseafilelockforecastformatRFormulafracdifffutile.loggerfutile.optionsgenericsggplot2ggpubrggrepelggsciggsignifgluegridExtragtablehmshttrhttr2IRangesisobandjsonliteKEGGRESTlabelinglambda.rlatticelifecyclelme4lmtestmagrittrMASSMatrixMatrixModelsmemoisemgcvmicrobenchmarkmimeminqamodelrnlmenloptrnnetnumDerivopensslpbkrtestpillarpkgconfigpngpolynomprettyunitspROCprogresspurrrquantregR6rappdirsrbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRdpackreadrreformulasrlangRSQLiterstatixS4VectorsS7scalesSeqinfosnowSparseMstringistringrsurvivalsystibbletidyrtidyselecttimeDatetzdburcautf8vctrsviridisLitevroomwithrXVectoryamlzoo

Workflow Demonstration for Deep characterization of cancer drugs

Rendered fromDeepTarget_Vignette.Rmdusingknitr::rmarkdownon Jun 10 2026.

Last update: 2024-10-21
Started: 2023-11-30