---
configs:
- config_name: lncrna_g_max
  data_files:
  - split: train
    path: lncrna_g_max/lncrna_g_max_train.csv.gz
  - split: validation
    path: lncrna_g_max/lncrna_g_max_test.csv.gz
  - split: test
    path: lncrna_g_max/lncrna_g_max_test.csv.gz

- config_name: lncrna_m_esculenta
  data_files:
  - split: train
    path: lncrna_m_esculenta/lncrna_m_esculenta_train.csv.gz
  - split: validation
    path: lncrna_m_esculenta/lncrna_m_esculenta_test.csv.gz
  - split: test
    path: lncrna_m_esculenta/lncrna_m_esculenta_test.csv.gz

- config_name: lncrna_s_bicolor
  data_files:
  - split: train
    path: lncrna_s_bicolor/lncrna_s_bicolor_train.csv.gz
  - split: validation
    path: lncrna_s_bicolor/lncrna_s_bicolor_test.csv.gz
  - split: test
    path: lncrna_s_bicolor/lncrna_s_bicolor_test.csv.gz

- config_name: lncrna_s_lycopersicum
  data_files:
  - split: train
    path: lncrna_s_lycopersicum/lncrna_s_lycopersicum_train.csv.gz
  - split: validation
    path: lncrna_s_lycopersicum/lncrna_s_lycopersicum_test.csv.gz
  - split: test
    path: lncrna_s_lycopersicum/lncrna_s_lycopersicum_test.csv.gz

- config_name: lncrna_t_aestivum
  data_files:
  - split: train
    path: lncrna_t_aestivum/lncrna_t_aestivum_train.csv.gz
  - split: validation
    path: lncrna_t_aestivum/lncrna_t_aestivum_test.csv.gz
  - split: test
    path: lncrna_t_aestivum/lncrna_t_aestivum_test.csv.gz

- config_name: lncrna_z_mays
  data_files:
  - split: train
    path: lncrna_z_mays/lncrna_z_mays_train.csv.gz
  - split: validation
    path: lncrna_z_mays/lncrna_z_mays_test.csv.gz
  - split: test
    path: lncrna_z_mays/lncrna_z_mays_test.csv.gz

- config_name: poly_a_arabidopsis_thaliana
  data_files:
  - split: train
    path: poly_a_arabidopsis_thaliana/poly_a_arabidopsis_thaliana_train.csv.gz
  - split: validation
    path: poly_a_arabidopsis_thaliana/poly_a_arabidopsis_thaliana_test.csv.gz
  - split: test
    path: poly_a_arabidopsis_thaliana/poly_a_arabidopsis_thaliana_test.csv.gz

- config_name: poly_a_chlamydomonas_reinhardtii
  data_files:
  - split: train
    path: poly_a_chlamydomonas_reinhardtii/poly_a_chlamydomonas_reinhardtii_train.csv.gz
  - split: validation
    path: poly_a_chlamydomonas_reinhardtii/poly_a_chlamydomonas_reinhardtii_test.csv.gz
  - split: test
    path: poly_a_chlamydomonas_reinhardtii/poly_a_chlamydomonas_reinhardtii_test.csv.gz

- config_name: poly_a_medicago_truncatula
  data_files:
  - split: train
    path: poly_a_medicago_truncatula/poly_a_medicago_truncatula_train.csv.gz
  - split: validation
    path: poly_a_medicago_truncatula/poly_a_medicago_truncatula_test.csv.gz
  - split: test
    path: poly_a_medicago_truncatula/poly_a_medicago_truncatula_test.csv.gz

- config_name: poly_a_oryza_sativa_indica_group
  data_files:
  - split: train
    path: poly_a_oryza_sativa_indica_group/poly_a_oryza_sativa_indica_group_train.csv.gz
  - split: validation
    path: poly_a_oryza_sativa_indica_group/poly_a_oryza_sativa_indica_group_test.csv.gz
  - split: test
    path: poly_a_oryza_sativa_indica_group/poly_a_oryza_sativa_indica_group_test.csv.gz

- config_name: poly_a_oryza_sativa_japonica_group
  data_files:
  - split: train
    path: poly_a_oryza_sativa_japonica_group/poly_a_oryza_sativa_japonica_group_train.csv.gz
  - split: validation
    path: poly_a_oryza_sativa_japonica_group/poly_a_oryza_sativa_japonica_group_test.csv.gz
  - split: test
    path: poly_a_oryza_sativa_japonica_group/poly_a_oryza_sativa_japonica_group_test.csv.gz

- config_name: poly_a_trifolium_pratense
  data_files:
  - split: train
    path: poly_a_trifolium_pratense/poly_a_trifolium_pratense_train.csv.gz
  - split: validation
    path: poly_a_trifolium_pratense/poly_a_trifolium_pratense_test.csv.gz
  - split: test
    path: poly_a_trifolium_pratense/poly_a_trifolium_pratense_test.csv.gz

- config_name: pro_seq_m_esculenta
  data_files:
  - split: train
    path: pro_seq_m_esculenta/pro_seq_m_esculenta_train.csv.gz
  - split: validation
    path: pro_seq_m_esculenta/pro_seq_m_esculenta_test.csv.gz
  - split: test
    path: pro_seq_m_esculenta/pro_seq_m_esculenta_test.csv.gz

- config_name: promoter_strength_leaf
  data_files:
  - split: train
    path: promoter_strength_leaf/promoter_strength_leaf_train.csv.gz
  - split: validation
    path: promoter_strength_leaf/promoter_strength_leaf_test.csv.gz
  - split: test
    path: promoter_strength_leaf/promoter_strength_leaf_test.csv.gz

- config_name: promoter_strength_protoplast
  data_files:
  - split: train
    path: promoter_strength_protoplast/promoter_strength_protoplast_train.csv.gz
  - split: validation
    path: promoter_strength_protoplast/promoter_strength_protoplast_test.csv.gz
  - split: test
    path: promoter_strength_protoplast/promoter_strength_protoplast_test.csv.gz

- config_name: splicing_arabidopsis_thaliana_acceptor
  data_files:
  - split: train
    path: splicing_arabidopsis_thaliana_acceptor/splicing_arabidopsis_thaliana_acceptor_train.csv.gz
  - split: validation
    path: splicing_arabidopsis_thaliana_acceptor/splicing_arabidopsis_thaliana_acceptor_test.csv.gz
  - split: test
    path: splicing_arabidopsis_thaliana_acceptor/splicing_arabidopsis_thaliana_acceptor_test.csv.gz

- config_name: splicing_arabidopsis_thaliana_donor
  data_files:
  - split: train
    path: splicing_arabidopsis_thaliana_donor/splicing_arabidopsis_thaliana_donor_train.csv.gz
  - split: validation
    path: splicing_arabidopsis_thaliana_donor/splicing_arabidopsis_thaliana_donor_test.csv.gz
  - split: test
    path: splicing_arabidopsis_thaliana_donor/splicing_arabidopsis_thaliana_donor_test.csv.gz

- config_name: te_prediction_arabidopsis
  data_files:
  - split: train
    path: te_prediction_arabidopsis/te_prediction_arabidopsis_train.csv.gz
  - split: validation
    path: te_prediction_arabidopsis/te_prediction_arabidopsis_val.csv.gz
  - split: test
    path: te_prediction_arabidopsis/te_prediction_arabidopsis_test.csv.gz

- config_name: te_prediction_rice
  data_files:
  - split: train
    path: te_prediction_rice/te_prediction_rice_train.csv.gz
  - split: validation
    path: te_prediction_rice/te_prediction_rice_val.csv.gz
  - split: test
    path: te_prediction_rice/te_prediction_rice_test.csv.gz

- config_name: terminator_strength_leaf
  data_files:
  - split: train
    path: terminator_strength_leaf/terminator_strength_leaf_train.csv.gz
  - split: validation
    path: terminator_strength_leaf/terminator_strength_leaf_test.csv.gz
  - split: test
    path: terminator_strength_leaf/terminator_strength_leaf_test.csv.gz

- config_name: terminator_strength_protoplast
  data_files:
  - split: train
    path: terminator_strength_protoplast/terminator_strength_protoplast_train.csv.gz
  - split: validation
    path: terminator_strength_protoplast/terminator_strength_protoplast_test.csv.gz
  - split: test
    path: terminator_strength_protoplast/terminator_strength_protoplast_test.csv.gz
---

# OmniGenBench

## Overview

[OmniGenBench](https://arxiv.org/pdf/2505.14402) is a collection of benchmark suites. This respository includes datasets from OmniGenBench that have been filtered by our criteria to be included in our quality-curated genomic benchmark datasets.

## Dataset structure

The repository is organized as follows:
```
OmniGenBench/
├── README.md
├── lncrna_g_max/
│   ├── lncrna_g_max_train.csv.gz
│   └── lncrna_g_max_test.csv.gz
├── lncrna_m_esculenta/
│   ├── lncrna_m_esculenta_train.csv.gz
│   └── lncrna_m_esculenta_test.csv.gz
├── lncrna_s_bicolor/
│   ├── lncrna_s_bicolor_train.csv.gz
│   └── lncrna_s_bicolor_test.csv.gz
├── lncrna_s_lycopersicum/
│   ├── lncrna_s_lycopersicum_train.csv.gz
│   └── lncrna_s_lycopersicum_test.csv.gz
├── lncrna_t_aestivum/
│   ├── lncrna_t_aestivum_train.csv.gz
│   └── lncrna_t_aestivum_test.csv.gz
├── lncrna_z_mays/
│   ├── lncrna_z_mays_train.csv.gz
│   └── lncrna_z_mays_test.csv.gz
├── poly_a_arabidopsis_thaliana/
│   ├── poly_a_arabidopsis_thaliana_train.csv.gz
│   └── poly_a_arabidopsis_thaliana_test.csv.gz
├── poly_a_chlamydomonas_reinhardtii/
│   ├── poly_a_chlamydomonas_reinhardtii_train.csv.gz
│   └── poly_a_chlamydomonas_reinhardtii_test.csv.gz
├── poly_a_medicago_truncatula/
│   ├── poly_a_medicago_truncatula_train.csv.gz
│   └── poly_a_medicago_truncatula_test.csv.gz
├── poly_a_oryza_sativa_indica_group/
│   ├── poly_a_oryza_sativa_indica_group_train.csv.gz
│   └── poly_a_oryza_sativa_indica_group_test.csv.gz
├── poly_a_oryza_sativa_japonica_group/
│   ├── poly_a_oryza_sativa_japonica_group_train.csv.gz
│   └── poly_a_oryza_sativa_japonica_group_test.csv.gz
├── poly_a_trifolium_pratense/
│   ├── poly_a_trifolium_pratense_train.csv.gz
│   └── poly_a_trifolium_pratense_test.csv.gz
├── pro_seq_m_esculenta/
│   ├── pro_seq_m_esculenta_train.csv.gz
│   └── pro_seq_m_esculenta_test.csv.gz
├── promoter_strength_leaf/
│   ├── promoter_strength_leaf_train.csv.gz
│   └── promoter_strength_leaf_test.csv.gz
├── promoter_strength_protoplast/
│   ├── promoter_strength_protoplast_train.csv.gz
│   └── promoter_strength_protoplast_test.csv.gz
├── splicing_arabidopsis_thaliana_acceptor/
│   ├── splicing_arabidopsis_thaliana_acceptor_train.csv.gz
│   └── splicing_arabidopsis_thaliana_acceptor_test.csv.gz
├── splicing_arabidopsis_thaliana_donor/
│   ├── splicing_arabidopsis_thaliana_donor_train.csv.gz
│   └── splicing_arabidopsis_thaliana_donor_test.csv.gz
├── te_prediction_arabidopsis/
│   ├── te_prediction_arabidopsis_train.csv.gz
│   ├── te_prediction_arabidopsis_val.csv.gz
│   └── te_prediction_arabidopsis_test.csv.gz
├── te_prediction_rice/
│   ├── te_prediction_rice_train.csv.gz
│   ├── te_prediction_rice_val.csv.gz
│   └── te_prediction_rice_test.csv.gz
├── terminator_strength_leaf/
│   ├── terminator_strength_leaf_train.csv.gz
│   └── terminator_strength_leaf_test.csv.gz
└── terminator_strength_protoplast/
    ├── terminator_strength_protoplast_train.csv.gz
    └── terminator_strength_protoplast_test.csv.gz
```