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)
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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

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:

On BioConductor:immApex-1.1.0(bioc 3.21)immApex-1.0.5(bioc 3.20)

softwareimmunooncologysinglecellclassificationannotationsequencingmotifannotationcpp

5.94 score 8 stars 3 scripts 188 downloads 16 exports 72 dependencies

Last updated 3 days agofrom:acc76613f2. Checks:12 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 26 2025
R-4.5-win-x86_64OKMar 26 2025
R-4.5-mac-x86_64OKMar 26 2025
R-4.5-mac-aarch64OKMar 26 2025
R-4.5-linux-x86_64OKMar 26 2025
R-4.4-win-x86_64OKMar 26 2025
R-4.4-mac-x86_64OKMar 26 2025
R-4.4-mac-aarch64OKMar 26 2025
R-4.4-linux-x86_64OKMar 26 2025
R-4.3-win-x86_64OKMar 26 2025
R-4.3-mac-x86_64OKMar 26 2025
R-4.3-mac-aarch64OKMar 26 2025

Exports:adjacencyMatrixbuildNetworkformatGenesgenerateSequencesgeometricEncodergetIMGTgetIRinferCDRmutateSequencesonehotEncoderpositionalEncoderprobabilityMatrixpropertyEncodersequenceDecodertokenizeSequencesvariationalSequences

Dependencies:abindaskpassbackportsbase64encBiobaseBiocGenericscliconfigcpp11crayoncurlDelayedArraydottyfansifastmapgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesgluehashherehttrigraphIRangesjsonlitekeras3latticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmimeopensslpillarpkgconfigpngprocessxpsR6rappdirsRcppRcppTOMLreticulaterlangrprojrootrstudioapirvestS4ArraysS4VectorsselectrSingleCellExperimentSparseArraystringistringrSummarizedExperimentsystensorflowtfautographtfrunstibbletidyselectUCSC.utilsutf8vctrswhiskerwithrxml2XVectoryamlzeallot

Machine and Deep Learning Models with immApex

Nick Borcherding

Rendered fromimmApex.Rmdusingknitr::rmarkdownon Mar 26 2025.

Last update: 2025-03-25
Started: 2024-08-05