AI Article Synopsis
- SEDA is a user-friendly desktop application for managing FASTA files containing DNA or protein sequences, designed for researchers without programming skills.
- It offers both simple (like filtering and sorting) and advanced tools (such as BLAST searching and sequence alignment) that are not commonly found in similar software.
- SEDA is open-source, easy to install, and helps in building high-quality datasets for various genetic studies, making it a valuable resource for life science researchers.
Article Abstract
SEDA (SEquence DAtaset builder) is a multiplatform desktop application for the manipulation of FASTA files containing DNA or protein sequences. The convenient graphical user interface gives access to a collection of simple (filtering, sorting, or file reformatting, among others) and advanced (BLAST searching, protein domain annotation, gene annotation, and sequence alignment) utilities not present in similar applications, which eases the work of life science researchers working with DNA and/or protein sequences, especially those who have no programming skills. This paper presents general guidelines on how to build efficient data handling protocols using SEDA, as well as practical examples on how to prepare high-quality datasets for single gene phylogenetic studies, the characterization of protein families, or phylogenomic studies. The user-friendliness of SEDA also relies on two important features: (i) the availability of easy-to-install distributable versions and installers of SEDA, including a Docker image for Linux, and (ii) the facility with which users can manage large datasets. SEDA is open-source, with GNU General Public License v3.0 license, and publicly available at GitHub (https://github.com/sing-group/seda). SEDA installers and documentation are available at https://www.sing-group.org/seda/.
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| http://dx.doi.org/10.1109/TCBB.2020.3040383 | DOI Listing |
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