DeepTarget
This is the development version of DeepTarget; for the stable release version, see DeepTarget.
Deep characterization of cancer drugs
Bioconductor version: Development (3.21)
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.
Author: Sanju Sinha [aut], Trinh Nguyen [aut, cre] (ORCID:
Maintainer: Trinh Nguyen <tinh.nguyen at nih.gov>
citation("DeepTarget")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("DeepTarget")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DeepTarget")| Workflow Demonstration for Deep characterization of cancer drugs | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CRISPR, DifferentialExpression, GeneExpression, GenePrediction, GeneSetEnrichment, GeneTarget, ImmunoOncology, Pathways, RNASeq, ReportWriting, Software |
| Version | 1.1.0 |
| In Bioconductor since | BioC 3.20 (R-4.4) (< 6 months) |
| License | GPL-2 |
| Depends | R (>= 4.2.0) |
| Imports | fgsea, ggplot2, stringr, ggpubr, BiocParallel, pROC, stats, grDevices, graphics, depmap, readr, dplyr |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | DeepTarget_1.1.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/DeepTarget |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/DeepTarget |
| Bioc Package Browser | https://code.bioconductor.org/browse/DeepTarget/ |
| Package Short Url | https://bioconductor.org/packages/DeepTarget/ |
| Package Downloads Report | Download Stats |