immApex
This is the development version of immApex; for the stable release version, see immApex.
Tools for Adaptive Immune Receptor Sequence-Based Keras Modeling
Bioconductor version: Development (3.21)
A set of tools to build tensorflow/keras-based models in R from amino acid and nucleotide sequences focusing on adaptive immune receptors. The package includes pre-processing of sequences, unifying gene nomenclature usage, encoding sequences, and combining models. This package will serve as the basis of future immune receptor sequence functions/packages/models compatible with the scRepertoire ecosystem.
Author: Nick Borcherding [aut, cre]
Maintainer: Nick Borcherding <ncborch at gmail.com>
citation("immApex")
):
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("immApex")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
Reference Manual |
Details
biocViews | Annotation, Classification, ImmunoOncology, MotifAnnotation, Sequencing, SingleCell, Software |
Version | 1.1.0 |
In Bioconductor since | BioC 3.20 (R-4.4) (< 6 months) |
License | MIT + file LICENSE |
Depends | R (>= 4.3.0) |
Imports | hash, httr, keras, magrittr, matrixStats, methods, rvest, SingleCellExperiment, stats, stringi, stringr, tensorflow, utils |
System Requirements | |
URL | https://github.com/ncborcherding/immApex/ |
Bug Reports | https://github.com/ncborcherding/immApex/issues |
See More
Suggests | BiocStyle, ggplot2, knitr, markdown, reticulate, rmarkdown, scRepertoire, spelling, testthat, viridis |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
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Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | |
Windows Binary (x86_64) | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/immApex |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/immApex |
Package Short Url | https://bioconductor.org/packages/immApex/ |
Package Downloads Report | Download Stats |