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SEDA 2024 update: enhancing the SEquence DAtaset builder for seamless integration into automated data analysis
Miguel Reboiro-Jato1,2, Daniel Pérez-Rodríguez3,4, Miguel José Da Silva1
1SING Research Group, SERGAS-UVIGO, Galicia Sur Health Research Institute (IIS Galicia Sur), 36213, Vigo, Spain.
BMC Bioinformatics
|May 27, 2024
Summary
The updated SEDA software now offers a command-line interface and automated pipeline capabilities for life science researchers. This enhancement supports advanced bioinformatics analysis and integration in Linux environments.
Area of Science:
- Bioinformatics
- Computational Biology
- Life Sciences
Background:
- The initial SEDA version facilitated FASTA file preparation for life science researchers lacking programming skills.
- Limitations included the absence of a command-line interface and support for automated analysis pipelines.
Purpose of the Study:
- To present updates in the new SEDA release, enhancing its utility for bioinformatics tasks.
- To introduce advanced features for a broader range of users and applications.
Main Methods:
- Development of a comprehensive command-line interface for SEDA.
- Implementation of new functionalities such as gene annotation.
- Establishment of a framework for creating automated analysis pipelines.
- Improvement of Linux environment integration.
Main Results:
- The new SEDA release includes a fully functional command-line interface.
- Gene annotation and automated pipeline creation are now supported.
- Enhanced integration within Linux operating systems is achieved.
Conclusions:
- SEDA is an open-source Java application available via distributions and a Docker image.
- The software is released under a GPL-3.0 license with publicly accessible source code on GitHub.
- The latest version (v1.6.0) is archived at Zenodo.
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