Package: immApex 1.1.0

Nick Borcherding

immApex: Tools for Adaptive Immune Receptor Sequence-Based Machine and Deep Learning

A set of tools to build tensorflow/keras3-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.

Authors:Nick Borcherding [aut, cre]

immApex_1.1.0.tar.gz
immApex_1.1.0.zip(r-4.5)immApex_1.1.0.zip(r-4.4)immApex_1.1.0.zip(r-4.3)
immApex_1.1.0.tgz(r-4.5-any)immApex_1.1.0.tgz(r-4.4-any)immApex_1.1.0.tgz(r-4.3-any)
immApex_1.1.0.tar.gz(r-4.5-noble)immApex_1.1.0.tar.gz(r-4.4-noble)
immApex_1.1.0.tgz(r-4.4-emscripten)immApex_1.1.0.tgz(r-4.3-emscripten)
immApex.pdf |immApex.html✨
immApex/json (API)
NEWS

# Install 'immApex' in R:
install.packages('immApex', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/borchlab/immapex/issues

Datasets:

On BioConductor:immApex-1.1.0(bioc 3.21)immApex-1.0.4(bioc 3.20)

softwareimmunooncologysinglecellclassificationannotationsequencingmotifannotation

5.90 score 8 stars 3 scripts 15 exports 69 dependencies

Last updated 1 days agofrom:0d19c80e3d. Checks:8 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 22 2025
R-4.5-winOKFeb 22 2025
R-4.5-macOKFeb 22 2025
R-4.5-linuxOKFeb 22 2025
R-4.4-winOKFeb 22 2025
R-4.4-macOKFeb 22 2025
R-4.3-winOKFeb 22 2025
R-4.3-macOKFeb 22 2025

Exports:adjacencyMatrixformatGenesgenerateSequencesgeometricEncodergetIMGTgetIRinferCDRmutateSequencesonehotEncoderpositionalEncoderprobabilityMatrixpropertyEncodersequenceDecodertokenizeSequencesvariationalSequences

Dependencies:abindaskpassbackportsbase64encBiobaseBiocGenericscliconfigcrayoncurlDelayedArrayfansifastmapgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesgluehashherehttrIRangesjsonlitekeras3latticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmimeopensslpillarpkgconfigpngprocessxpsR6rappdirsRcppRcppTOMLreticulaterlangrprojrootrstudioapirvestS4ArraysS4VectorsselectrSingleCellExperimentSparseArraystringistringrSummarizedExperimentsystensorflowtfautographtfrunstibbletidyselectUCSC.utilsutf8vctrswhiskerwithrxml2XVectoryamlzeallot

Making Deep Learning Models with immApex

Nick Borcherding

Rendered fromimmApex.Rmdusingknitr::rmarkdownon Feb 22 2025.

Last update: 2025-02-20
Started: 2024-08-05