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# CITATION.cff 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 "OmicsBraid" in publications use:'
type: software
license: MIT
title: 'OmicsBraid: Covariance-Aware Inference of Cross-Omic Effect Trajectories'
version: 0.2.2
identifiers:
- type: doi
  value: 10.32614/CRAN.package.OmicsBraid
abstract: A research-oriented statistical framework for comparing standardized biological
  effects across matched omics layers. It estimates layer-specific standardized effects,
  accounts for cross-omic dependence using matched-subject bootstrap correlations,
  tests multivariate omnibus evidence, synthesizes consensus effects with generalized
  least squares, quantifies cross-omic heterogeneity, performs practical-equivalence
  testing, fits covariance-aware ordered GLS effect trajectories, classifies hierarchical
  cross-layer effect patterns with separate confirmatory and suggestive states, supports
  analytic and subject-bootstrap confidence intervals for layer and consensus effects,
  supports empirical matched-subject permutation and centered-bootstrap calibration
  of omnibus and heterogeneity tests for non-Gaussian settings, and creates evidence-forest
  and effect-braid visualizations. The package is designed for analysis-ready bulk
  multi-omics data or externally estimated summary statistics. It does not perform
  raw sequencing or mass-spectrometry preprocessing.
authors:
- family-names: Farooq
  given-names: Adeel
  email: jhwanj9@gmail.com
preferred-citation:
  type: manual
  title: 'OmicsBraid: Covariance-Aware Inference of Cross-Omic Effect Trajectories'
  authors:
  - family-names: Farooq
    given-names: Adeel
    email: jhwanj9@gmail.com
  year: '2026'
  notes: R package version 0.2.2; frozen manuscript analysis release
  url: https://github.com/microbes-potential/OmicsBraid
repository: https://microbes-potential.r-universe.dev
repository-code: https://github.com/microbes-potential/OmicsBraid
commit: 94beac15565ed774fbec9f1cb57bdaa2dc3fbe97
url: https://microbes-potential.github.io/OmicsBraid/
date-released: '2026-08-21'
contact:
- family-names: Farooq
  given-names: Adeel
  email: jhwanj9@gmail.com