miRBench_paper v1.0.1

Added gene clustering analysis and engineered dataset with inflated miRNA frequency class bias, to address reviewer comments for miRBench manuscript submitted to ECCB/ISCB 2025 Proceedings (Bioinformatics).

miRBench_paper v1.0.0

Code for model training, miraw analysis, and new plots added.

miRBench manuscript submitted to ECCB/ISCB 2025 Proceedings (Bioinformatics) with this version of main branch.

miRBench_paper v0.2.0

Code refactored and new scripts added to address and mitigate against a bias discovered in previous versions of the datasets.

This release contains code used to create the reproducible, unbiased (miRNA families balanced between positive and negative classes) datasets available as v5 on Zenodo.

miRBench_paper v0.1.2

miRBench manuscript submitted to BioRxiv with this version of main branch and the following commits on yet unmerged branches (pending approval of PRs).

Branch david/fig5, commit 87a028f

Branch eva/model_training, commit cb4abfe

miRBench_paper v0.1.1

Updated to create a reproducible post-process pipeline, retaining also 'chr', 'start;', 'end', and 'strand' columns from the concatenated HybriDetector output files, to enable addition of other features downstream, such as conservation.

The datasets on miRBench 1.0.0 were created by this release.

miRBench_paper v0.1.0

First version for miRBench manuscript.