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# CITATION.cff file created with {cffr} R package
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cff-version: 1.2.0
message: 'To cite package "bHIVE" in publications use:'
type: software
license: MIT
title: 'bHIVE: B-cell Hybrid Immune Variant Engine'
version: 0.99.8
abstract: bHIVE implements an artificial immune network (AI-Net) for clustering and
  classification of high-dimensional data such as mass cytometry and single-cell profiles.
  A population of prototypes, called antibodies, evolves by clonal selection, somatic
  hypermutation and network suppression, and the learned prototypes summarize cell
  populations in the original marker units. The same fitted model clusters a dataset
  and labels new cells. bHIVE accepts SummarizedExperiment and SingleCellExperiment
  objects and integrates with bluster through bHIVEParam. A C++ backend computes affinities,
  mutations and suppression, and optional R6 modules add mechanisms such as germinal
  center selection, microenvironment-dependent mutation and isotype switching. The
  package also provides multilayer clustering, grid search and caret model wrappers.
authors:
- family-names: Borcherding
  given-names: Nick
  email: ncborch@gmail.com
  orcid: https://orcid.org/0000-0003-1427-6342
repository: https://bioc.r-universe.dev
repository-code: https://github.com/BorchLab/bHIVE
commit: bcab3c85a0ef081a6c9831d84fd73659fe4eae8d
url: https://www.borch.dev/uploads/bhive/
date-released: '2026-10-16'
contact:
- family-names: Borcherding
  given-names: Nick
  email: ncborch@gmail.com
  orcid: https://orcid.org/0000-0003-1427-6342