FinDNA

paper https://arxiv.org/abs/2405.08538

Overview of FinDNA with self-supervised learning.

Please load the pretained model "model_29_1000_4l_308_512_noiseandTL.pt" for all the downstream tasks.

To evaluate FinDNA on GenomicBenchmarks, you need to:

1. Run ./data/genomic_benchmark.py to get train and test data for 8 tasks.
2. Run genomic_classification.py for fine tuning.

To evaluate FinDNA on GUE, you need to:

1. Download dataset from https://github.com/MAGICS-LAB/DNABERT_2
2. Run gue_classification.py for fine tuning.

To evaluate FinDNA on MTcDNA, you need to:

1. Run ./data/genome_process.py to create train and test dataset.
2. Run cdna_classification.py for fine tuning.