roi_table

roi_table performs computational processing and provenance tracking of large high-throughput biomedical datasets, including next-generation DNA sequencing, to support statistical and machine-learning analyses for applications such as genomics and finger vein biometric recognition.


Key Features:

  • Transparency and Reproducibility: Automatically tracks all computational processes and provenance to enable inspection, publication, and reuse of analyses.
  • Scalability for Biomedical Analyses: Supports large-scale analysis and interpretation of vast high-throughput datasets generated by technologies such as next-generation DNA sequencing.

Scientific Applications:

  • Genomics: Processing and analysis of next-generation DNA sequencing datasets to support statistical and machine-learning workflows.
  • Finger Vein Biometric Recognition: Analysis of finger vein data using (2D)² PCA for feature extraction, metric learning for individualized classification, KNN classifiers tailored per individual, and SMOTE to address class imbalance, with reported recognition rates up to 99.17% in studies.

Methodology:

Computational methods explicitly include (2D)² PCA for feature extraction, metric learning for individualized classification, KNN classifiers tailored per individual, SMOTE for class-imbalance mitigation, and general statistical processing of large datasets.

Topics

Collections

Details

Maturity:
Mature
Tool Type:
web application
Operating Systems:
Linux, Windows, Mac
Added:
12/19/2016
Last Updated:
11/25/2024

Operations

Data Inputs & Outputs

Visualisation

Inputs

Outputs

Publications

Yang G, Xi X, Yin Y. Finger Vein Recognition Based on (2D)<sup>2</sup>PCA and Metric Learning. Journal of Biomedicine and Biotechnology. 2012;2012:1-9. doi:10.1155/2012/324249. PMID:22675248. PMCID:PMC3364026.

PMID: 22675248
PMCID: PMC3364026
Funding: - National Natural Science Foundation of China: 20100131110021, 61070097, 61173069 - Doctoral Program of Higher Education: 20100131110021, 61070097, 61173069

Afgan E, Baker D, van den Beek M, Blankenberg D, Bouvier D, Čech M, Chilton J, Clements D, Coraor N, Eberhard C, Grüning B, Guerler A, Hillman-Jackson J, Von Kuster G, Rasche E, Soranzo N, Turaga N, Taylor J, Nekrutenko A, Goecks J. The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update. Nucleic Acids Research. 2016;44(W1):W3-W10. doi:10.1093/nar/gkw343. PMID:27137889. PMCID:PMC4987906.

Mareuil F, Doppelt-Azeroual O, Ménager H. A public Galaxy platform at Pasteur used as an execution engine for web services. Unknown Journal. 2017. doi:10.7490/f1000research.1114334.1.

Documentation

Links