NGSML

NGSML standardizes the structured representation and exchange of next-generation sequencing (NGS) data using an XML-based schema to enable interoperability across sequencing platforms and analytical software.


Key Features:

  • XML-Based Structure: Defines an XML schema to represent NGS data in a structured, machine-readable form.
  • Unified Data Representation: Consolidates multiple types of NGS data into a single, consistent format for data management and exchange.
  • Interoperability: Promotes compatibility between different sequencing platforms and analytical tools by providing a common data representation.

Scientific Applications:

  • Basic Research: Enables integration and comparative analysis of diverse NGS datasets in genomic studies.
  • Clinical Diagnostics: Standardizes genomic data exchange to support diagnostic workflows and result interpretation.
  • Healthcare Data Management: Facilitates exchange and organization of patient-related genomic information for precision medicine initiatives.

Methodology:

Provides an XML-based specification/schema for the structured representation and exchange of NGS data.

Topics

Details

License:
GPL-3.0
Cost:
Free of charge
Tool Type:
desktop application
Operating Systems:
Linux, Windows
Programming Languages:
Java
Added:
6/15/2022
Last Updated:
6/15/2022

Operations

Publications

Yu C, Qi X, Yan W, Wu W, Shen B. Next-Generation Sequencing Markup Language (NGSML): A Medium for the Representation and Exchange of NGS Data. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 2023;20(1):576-585. doi:10.1109/tcbb.2022.3144170. PMID:35085089.

PMID: 35085089
Funding: - National Natural Science Foundation of China: 32070671