SAGPEK: fast and flexible approach to identify genotypes of Sanger sequencing data
SAGPEK provides an efficient, flexible, and user-friendly solution for analyzing ABI-format Sanger sequencing data, enabling simultaneous genotyping of tens of loci across hundreds of samples. Its innovation lies not in introducing new base-calling methods, but in integrating versatile functionalities-batch genotyping, customizable anchor sequences, amino acid alteration reporting, chromatogram visualization, and local execution-into a single open-source package. This makes SAGPEK well suited for applications such as human genetic disease screening, drug-resistance mutation detection, and functional mutation identification in livestock and other organisms.
Authors
- Yaran Zhang (ORCID: https://orcid.org/0000-0003-2601-0824)
- Yaping Gao (ORCID: https://orcid.org/0000-0001-5202-4205)
- Zhihua Ju (ORCID: https://orcid.org/0000-0003-1703-3215)
- Xiaochao Wei (ORCID: https://orcid.org/0000-0003-4230-7126)
- Chunhong Yang (ORCID: https://orcid.org/0000-0002-5726-810X)
- Jinming Huang (ORCID: https://orcid.org/0000-0001-9621-5652)
- Shuo Sun (ORCID: https://orcid.org/0000-0002-8432-0452)
- Jinpeng Wang (ORCID: https://orcid.org/0000-0003-1892-0246)
- Wenhao Liu (ORCID: https://orcid.org/0000-0002-0088-6433)
- Yao Xiao
- Qiang Jiang (ORCID: https://orcid.org/0000-0002-9880-9435)
- Ning Huang
- Xiuge Wang
Institutions
- Shandong Management University (CN)
- Shandong Academy of Agricultural Sciences (CN)
- Innovation Team (China) (HK)
Publication Details
- Journal
- BMC Bioinformatics
- Published
- 2025-10-14
- DOI
- https://doi.org/10.1186/s12859-025-06271-5
- Primary Topic
- Genomics and Rare Diseases
- Type
- article
- Field-Weighted Citation Impact
- 0.00
Funders
- National Natural Science Foundation of China
- Natural Science Foundation of Shandong Province
- National Key Research and Development Program of China