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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 "DspikeIn" in publications use:'
type: software
license: MIT
title: 'DspikeIn: Estimating Absolute Abundance from Microbial Spike-in Controls'
version: 1.3.0
doi: 10.32614/CRAN.package.DspikeIn
abstract: Provides a reproducible and modular workflow for absolute microbial quantification
  using spike-in controls. Supports both single spike-in taxa and synthetic microbial
  communities with user-defined spike-in volumes and genome copy numbers. Compatible
  with 'phyloseq' and 'TreeSummarizedExperiment' (TSE) data structures. The package
  implements methods for spike-in validation, preprocessing, scaling factor estimation,
  absolute abundance conversion, bias correction, and normalization. Facilitates downstream
  statistical analyses with 'DESeq2', 'edgeR', and other Bioconductor-compatible methods.
  Visualization tools are provided via 'ggplot2', 'ggtree', and related packages.
  Includes detailed vignettes, case studies, and function-level documentation to guide
  users through experimental design, quantification, and interpretation.
authors:
- family-names: Ghotbi
  given-names: Mitra
  email: mitra.ghotbi@gmail.com
  orcid: https://orcid.org/0000-0001-9185-9993
repository: https://bioc.r-universe.dev
repository-code: https://github.com/mghotbi/DspikeIn
commit: 7bf75c07b21cf22499e9525dc0d4e953cc68e004
url: https://github.com/mghotbi/DspikeIn
date-released: '2026-04-28'
contact:
- family-names: Ghotbi
  given-names: Mitra
  email: mitra.ghotbi@gmail.com
  orcid: https://orcid.org/0000-0001-9185-9993