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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 "SNPAssayR" in publications use:'
type: software
license: GPL-3.0-only
title: 'SNPAssayR: SNP Genotyping Assay Design and Visualization'
version: 1.0.1
abstract: Designs cleaved amplified polymorphic sequence (CAPS), derived CAPS (dCAPS),
  conventional amplification refractory mutation system (ARMS) and tetra-primer ARMS
  assays for single-locus, biallelic single nucleotide polymorphisms. Evaluates sequence-compatible
  primer binding, reconstructs ideal polymerase chain reaction products and computes
  theoretical complete restriction digestion and conditional genotype profiles. Transparent
  preference ranking, scientific visualizations and reproducible exports retain assumptions,
  missing specificity evidence and bounded search limitations. An optional offline
  'shiny' interface uses the independently available analysis functions. Predictions
  do not establish experimental amplification, digestion efficiency or genome-wide
  specificity. Implements perfect-match nearest-neighbor thermodynamics from SantaLucia
  (1998) <https://doi.org/10.1073/pnas.95.4.1460>, single-substitution site-creation
  dCAPS based on Neff et al. (1998) <https://doi.org/10.1046/j.1365-313X.1998.00124.x>,
  and conditional ARMS designs based on Newton et al. (1989) <https://doi.org/10.1093/nar/17.7.2503>
  and Ye et al. (2001) <https://doi.org/10.1093/nar/29.17.e88>.
authors:
- family-names: Yadav
  given-names: Prashant
  email: prashantnduat@gmail.com
- family-names: Kumar
  given-names: Vinod
- family-names: Singh
  given-names: Vijay Veer
preferred-citation:
  type: manual
  title: 'SNPAssayR: SNP Genotyping Assay Design and Visualization'
  authors:
  - family-names: Yadav
    given-names: Prashant
    email: prashantnduat@gmail.com
  - family-names: Kumar
    given-names: Vinod
  - family-names: Singh
    given-names: Vijay Veer
  year: '2026'
  notes: R package version 1.0.1
repository: https://cran.r-universe.dev
commit: 227cd3cf3f660959ae29227403f03272c5058ae1
date-released: '2026-10-22'
contact:
- family-names: Yadav
  given-names: Prashant
  email: prashantnduat@gmail.com