metadata
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 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