adverSCarial
This is the development version of adverSCarial; for the stable release version, see adverSCarial.
adverSCarial, generate and analyze the vulnerability of scRNA-seq classifier to adversarial attacks
Bioconductor version: Development (3.24)
adverSCarial is an R Package designed for generating and analyzing the vulnerability of scRNA-seq classifiers to adversarial attacks. The package is versatile and provides a format for integrating any type of classifier. It offers functions for studying and generating two types of attacks, single gene attack and max change attack. The single-gene attack involves making a small modification to the input to alter the classification. The max-change attack involves making a large modification to the input without changing its classification. The CGD attack is based on an estimated gradient descent. against adversarial attacks. The package provides a comprehensive solution for evaluating the robustness of scRNA-seq classifiers against adversarial attacks.
Author: Ghislain FIEVET [aut, cre]
, Sébastien HERGALANT [aut]
Maintainer: Ghislain FIEVET <ghislain.fievet at gmail.com>
citation("adverSCarial")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("adverSCarial")
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("adverSCarial")| Vign01_adverSCarial | HTML | R Script |
| Vign02_overView_analysis | HTML | R Script |
| Vign03_adapt_classifiers | HTML | |
| Vign04_advRandWalkMinChange | HTML | |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Classification, SingleCell, Software, Transcriptomics |
| Version | 1.11.0 |
| In Bioconductor since | BioC 3.18 (R-4.3) (3 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 3.5.0) |
| Imports | gtools, S4Vectors, methods, DelayedArray |
| System Requirements | |
| URL |
See More
| Suggests | knitr, RUnit, BiocGenerics, TENxPBMCData, CHETAH, stringr, LoomExperiment |
| 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 | adverSCarial_1.11.0.tar.gz |
| Windows Binary (x86_64) | adverSCarial_1.11.0.zip |
| macOS Binary (big-sur-x86_64) | adverSCarial_1.11.0.tgz |
| macOS Binary (sonoma-arm64) | adverSCarial_1.11.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/adverSCarial |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/adverSCarial |
| Bioc Package Browser | https://code.bioconductor.org/browse/adverSCarial/ |
| Package Short Url | https://bioconductor.org/packages/adverSCarial/ |
| Package Downloads Report | Download Stats |