Omixer

'Omixer' is an R package to address batch effects in omics studies by implementing multivariate and reproducible sample randomization. It focuses on minimizing correlations between technical factors and biological variables of interest by optimizing the distribution of samples across batches. The proactive tool aims to preemptively control batch effects, offering a systematic approach to handle multiple batches and outcomes.

Topic

Sample collections;Microarray experiment;Imaging

Detail

  • Operation: Visualisation

  • Software interface: Library

  • Language: R

  • License: The MIT License

  • Cost: Free

  • Version name: 1.12.0

  • Credit: The Joint Programming Initiative ‘a Healthy Diet for a Healthy Life’ (JPI-HDHL) DIMENSION project.

  • Input: -

  • Output: -

  • Contact: Lucy Sinke l.j.sinke@lumc.nl

  • Collection: -

  • Maturity: Stable

Publications

  • Omixer: multivariate and reproducible sample randomization to proactively counter batch effects in omics studies.
  • Sinke L, et al. Omixer: multivariate and reproducible sample randomization to proactively counter batch effects in omics studies. Omixer: multivariate and reproducible sample randomization to proactively counter batch effects in omics studies. 2021; 37:3051-3052. doi: 10.1093/bioinformatics/btab159
  • https://doi.org/10.1093/BIOINFORMATICS/BTAB159
  • PMID: 33693546
  • PMC: PMC10262301

Download and documentation

< Back to DB search