ShinySOM: graphical SOM-based analysis of single-cell cytometry data
Language English Country England, Great Britain Media print
Document type Journal Article, Research Support, Non-U.S. Gov't
PubMed
32049322
PubMed Central
PMC7214046
DOI
10.1093/bioinformatics/btaa091
PII: 5734646
Knihovny.cz E-resources
- MeSH
- Algorithms * MeSH
- Metadata MeSH
- Workflow MeSH
- Software * MeSH
- Publication type
- Journal Article MeSH
- Research Support, Non-U.S. Gov't MeSH
SUMMARY: ShinySOM offers a user-friendly interface for reproducible, high-throughput analysis of high-dimensional flow and mass cytometry data guided by self-organizing maps. The software implements a FlowSOM-style workflow, with improvements in performance, visualizations and data dissection possibilities. The outputs of the analysis include precise statistical information about the dissected samples, and R-compatible metadata useful for the batch processing of large sample volumes. AVAILABILITY AND IMPLEMENTATION: ShinySOM is free and open-source, available online at gitlab.com/exaexa/ShinySOM. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Department of Software Engineering MFF Charles University 118 00 Prague Czech Republic
Institute of Organic Chemistry and Biochemistry AS CR 166 10 Praha 6 Czech Republic
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