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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "snp.slicer" in publications use:'
type: software
license: GPL-3.0-only
title: 'snp.slicer: Bayesian Nonparametric Resolution of Multi-Strain Infections'
version: 0.1.0
doi: 10.1093/bioinformatics/btae344
identifiers:
- type: doi
  value: 10.32614/CRAN.package.snp.slicer
abstract: Implementation of SNP-Slice, a Bayesian nonparametric method for resolving
  multi-strain infections using slice sampling with stick-breaking construction. The
  algorithm simultaneously estimates strain haplotypes and links them to hosts from
  sequencing data. Supports multiple observation models including categorical, Poisson,
  binomial, and negative binomial distributions.
authors:
- family-names: Murphy
  given-names: Maxwell
  email: maxwell.murphy@ucsf.edu
  orcid: https://orcid.org/0000-0003-0332-4388
preferred-citation:
  type: article
  title: 'SNP-slice Resolves Mixed Infections: Simultaneously Unveiling Strain Haplotypes
    and Linking Them to Hosts'
  authors:
  - name: Ju
  - name: Nianqiao
  - name: Liu
  - name: Jiawei
  - name: He
  - name: Qixin
  journal: Bioinformatics
  year: '2024'
  volume: '40'
  issue: '6'
  doi: 10.1093/bioinformatics/btae344
  start: btae344
repository: https://plasmogenepi.r-universe.dev
repository-code: https://github.com/plasmogenepi/snp.slicer
commit: 303bfd83dd00543f40e9feca2a037c44859e8998
url: https://plasmogenepi.github.io/snp.slicer/
date-released: '2026-06-03'
contact:
- family-names: Murphy
  given-names: Maxwell
  email: maxwell.murphy@ucsf.edu
  orcid: https://orcid.org/0000-0003-0332-4388