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cff-version: 1.2.0
message: 'To cite package "geneticumap" in publications use:'
type: software
license: MIT
title: 'geneticumap: Evolutionary Algorithm for UMAP-based Clustering Pipeline Parameter
  Optimization for Single-Cell RNA-Seq Data'
version: 0.99.3
doi: 10.32614/CRAN.package.geneticumap
abstract: The geneticumap package searches for single-cell clustering parameters by
  treating the Seurat preprocessing and clustering workflow as an optimization problem.
  The UMAP-based clustering pipeline parameters for single-cell RNA-seq data (like
  resolution, number of PCs, or neighbor counts) evolve using an evolutionary algorithm
  to systematically search for an optimal set of parameters for a given dataset. The
  most appropriate configuration is objectively identified by the Calinski-Harabasz
  index. The package is developed at the [Institute of Medical Systems Biology of
  Ulm University](https://sysbio.uni-ulm.de).
authors:
- family-names: Winter
  given-names: Lisa-Maria
  email: lisa-maria-1.winter@uni-ulm.de
- family-names: Wagner
  given-names: Hanna
  email: hanna.wagner@uni-ulm.de
- family-names: Dreiheller
  given-names: Dominik
- family-names: Kestler
  given-names: Hans A.
  email: hans.kestler@uni-ulm.de
  orcid: https://orcid.org/0000-0002-4759-5254
repository: https://biocstaging.r-universe.dev
repository-code: https://github.com/sysbio-bioinf/geneticumap
commit: 717508293cf3311b3135a65e05e9e1cbcc6c0bb8
url: https://github.com/sysbio-bioinf/geneticumap
date-released: '2026-10-13'
contact:
- family-names: Kestler
  given-names: Hans A.
  email: hans.kestler@uni-ulm.de
  orcid: https://orcid.org/0000-0002-4759-5254