cff-version: 1.2.0
message: "If you use this software, please cite it as below."
title: "flexidot"
version: 2.0.0
date-released: 2025-22-05
authors:
  - family-names: Seibt
    given-names: Kathrin M
    orcid: https://orcid.org/0000-0002-5435-2381
    affiliation: "Technische Universität Dresden"
  - family-names: Schmidt
    given-names: Thomas
    orcid: https://orcid.org/0000-0001-7259-415X
    affiliation: "Technische Universität Dresden"
  - family-names: Heitkam
    given-names: Tony
    orcid: https://orcid.org/0000-0003-0168-8428
    affiliation: "RWTH Aachen University"
repository-code: "https://github.com/flexidot-bio/flexidot"
license: MIT
abstract: >-
  FlexiDot is a cross-platform dotplot suite generating high quality self,
  pairwise and all-against-all visualizations. To improve dotplot suitability
  for comparison of consensus and error-prone sequences, FlexiDot harbors
  routines for strict and relaxed handling of mismatches and ambiguous
  residues. The custom shading modules facilitate dotplot interpretation and
  motif identification by adding information on sequence annotations and
  sequence similarities to the images. Combined with collage-like outputs,
  FlexiDot supports simultaneous visual screening of a large sequence sets,
  allowing dotplot use for routine screening.
keywords:
  - genomics
  - bioinformatics
preferred-citation:
  type: software
  authors:
    - family-names: Seibt
      given-names: Kathrin M
      orcid: https://orcid.org/0000-0002-5435-2381
      affiliation: "Technische Universität Dresden"
    - family-names: Schmidt
      given-names: Thomas
      orcid: https://orcid.org/0000-0001-7259-415X
      affiliation: "Technische Universität Dresden"
    - family-names: Heitkam
      given-names: Tony
      orcid: https://orcid.org/0000-0003-0168-8428
      affiliation: "RWTH Aachen University"
  title: "FlexiDot: highly customizable, ambiguity-aware dotplots for visual sequence analyses"
  year: 2018
  journal: Bioinformatics
  volume: 34
  issue: 20
  pages: 3575-3577
  url: "https://doi.org/10.1093/bioinformatics/bty395"
  doi: "10.1093/bioinformatics/bty353"
  repository-code: "https://github.com/flexidot-bio/flexidot"
