XAItest
This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see XAItest.
XAItest: Enhancing Feature Discovery with eXplainable AI
Bioconductor version: 3.21
XAItest is an R Package that identifies features using eXplainable AI (XAI) methods such as SHAP or LIME. This package allows users to compare these methods with traditional statistical tests like t-tests, empirical Bayes, and Fisher's test. Additionally, it includes a system that enables the comparison of feature importance with p-values by incorporating calibrated simulated data.
Author: Ghislain FIEVET [aut, cre]
, Sébastien HERGALANT [aut]
Maintainer: Ghislain FIEVET <ghislain.fievet at gmail.com>
citation("XAItest")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("XAItest")
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("XAItest")| 01_XAItest | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Classification, FeatureExtraction, Regression, Software, StatisticalMethod |
| Version | 1.0.3 |
| In Bioconductor since | BioC 3.21 (R-4.5) (0.5 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 3.5.0) |
| Imports | limma, randomForest, kernelshap, caret, lime, DT, methods, SummarizedExperiment, ggplot2 |
| System Requirements | |
| URL | https://github.com/GhislainFievet/XAItest |
| Bug Reports | https://github.com/GhislainFievet/XAItest/issues |
See More
| Suggests | knitr, ggforce, shapr (>= 1.0.1), airway, xgboost, BiocGenerics, RUnit, S4Vectors |
| 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 | XAItest_1.0.3.tar.gz |
| Windows Binary (x86_64) | XAItest_1.0.1.zip |
| macOS Binary (x86_64) | XAItest_1.0.3.tgz |
| macOS Binary (arm64) | XAItest_1.0.3.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/XAItest |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/XAItest |
| Bioc Package Browser | https://code.bioconductor.org/browse/XAItest/ |
| Package Short Url | https://bioconductor.org/packages/XAItest/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.21 | Source Archive |