Published April 28, 2026 | Version v1.1.0
Software Open

A Governance-First Benchmark for Genomic Fragment Classification under Homology-Aware Evaluation

Authors/Creators

  • 1. School of Information Engineering, Zhongnan University of Economics and Law, Wuhan, Hubei, China
  • 2. School of Cyberspace, Hangzhou Dianzi University, Hangzhou, Zhejiang, China
  • 3. State Key Laboratory of Mariculture Biobreeding and Sustainable Goods, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, Shandong, China

Description

Source code for benchmark generation, FlatfishBert pretraining and fine-tuning, DNABERT-2 baseline evaluation, cross-species transfer evaluation, diagnostic task experiments, figure generation, and MMseqs2 train-test similarity auditing. Processed datasets, FlatfishBert checkpoints, result artifacts, and compact supplementary-table TSVs are archived separately in the Zenodo data/model record.

Files

dogesang/FlatfishBERT-v1.1.0.zip

Files (2.8 MB)

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Additional details

Related works

Is identical to
Software: https://github.com/dogesang/FlatfishBERT (URL)
Is supplement to
Dataset: 10.5281/zenodo.19825273 (DOI)

Software

Repository URL
https://github.com/dogesang/FlatfishBERT