--- dataset_info: - config_name: Joung-diff-celltype-reserve-engineering-languageQA features: - name: question dtype: string - name: answer dtype: string - name: cell_line dtype: string - name: cell_file dtype: string - name: marker_info dtype: string splits: - name: train num_bytes: 33565594 num_examples: 33234 - name: validation num_bytes: 4192583 num_examples: 4150 - name: test num_bytes: 4194868 num_examples: 4154 download_size: 940676 dataset_size: 41953045 - config_name: Joung-differentiated-pathway-activity-DE-languageQA features: - name: question dtype: string - name: answer dtype: string - name: cell_type dtype: string - name: cell_file dtype: string splits: - name: train num_bytes: 6329175326 num_examples: 9988848 - name: validation num_bytes: 790630510 num_examples: 1247202 - name: test num_bytes: 790767518 num_examples: 1248450 download_size: 3409347532 dataset_size: 7910573354 - config_name: Joung-differentiated-pathway-activity-DE-languageQA- features: - name: question dtype: string - name: answer dtype: string - name: cell_type dtype: string - name: cell_file dtype: string splits: - name: train num_bytes: 6329175326 num_examples: 9988848 - name: validation num_bytes: 790630510 num_examples: 1247202 - name: test num_bytes: 790767518 num_examples: 1248450 download_size: 3409347532 dataset_size: 7910573354 - config_name: Joung-predict-mapped-cell-type-languageQA features: - name: question_type dtype: string - name: question dtype: string - name: answer dtype: string - name: TF_gene dtype: string - name: barcode dtype: string - name: cell_line dtype: string - name: differentiated_cell_file dtype: string splits: - name: train num_bytes: 9358413 num_examples: 3717 - name: validation num_bytes: 1170214 num_examples: 465 - name: test num_bytes: 1170734 num_examples: 465 download_size: 1847308 dataset_size: 11699361 - config_name: Joung_TF_deg_vs_ctl_languageQA features: - name: question dtype: string - name: answer dtype: string - name: cell_type dtype: string - name: cell_file dtype: string splits: - name: train num_bytes: 335378586 num_examples: 1396974 - name: validation num_bytes: 41877830 num_examples: 174426 - name: test num_bytes: 41918822 num_examples: 174600 download_size: 35173656 dataset_size: 419175238 - config_name: PROGENy-pathways-languageQA features: - name: type dtype: string - name: question dtype: string - name: answer dtype: string - name: gene dtype: string - name: pathways list: string - name: pathway dtype: string - name: top_n dtype: float64 - name: genes list: string - name: weight dtype: float64 - name: direction dtype: string - name: gene1 dtype: string - name: weight1 dtype: float64 - name: gene2 dtype: string - name: weight2 dtype: float64 - name: more_important dtype: string splits: - name: train num_bytes: 11113703 num_examples: 35345 - name: validation num_bytes: 1373573 num_examples: 4369 - name: test num_bytes: 1387304 num_examples: 4413 download_size: 2217948 dataset_size: 13874580 - config_name: Tahoe100M-de-language-six-celllines features: - name: question dtype: string - name: answer dtype: string - name: cell_line dtype: string splits: - name: train num_bytes: 13175516681 num_examples: 88011000 - name: validation num_bytes: 1645109829 num_examples: 10989000 - name: test num_bytes: 1646728308 num_examples: 11000000 download_size: 2513349270 dataset_size: 16467354818 - config_name: Xaira-cell-cycle-languageQA features: - name: question dtype: string - name: answer dtype: string - name: cell_line dtype: string splits: - name: train num_bytes: 5690837 num_examples: 16002 - name: validation num_bytes: 710494 num_examples: 1998 - name: test num_bytes: 711102 num_examples: 2000 download_size: 1889335 dataset_size: 7112433 - config_name: Xaira-cell-line-origin-languageQA features: - name: question dtype: string - name: answer dtype: string - name: cell_line dtype: string splits: - name: train num_bytes: 5525074 num_examples: 16002 - name: validation num_bytes: 689789 num_examples: 1998 - name: test num_bytes: 690426 num_examples: 2000 download_size: 1869473 dataset_size: 6905289 - config_name: Xaira-tissue-origin-languageQA features: - name: question dtype: string - name: answer dtype: string - name: cell_line dtype: string splits: - name: train num_bytes: 6021136 num_examples: 16002 - name: validation num_bytes: 751727 num_examples: 1998 - name: test num_bytes: 752426 num_examples: 2000 download_size: 1894443 dataset_size: 7525289 - config_name: bioreason-MSigDB-languageQA features: - name: type dtype: string - name: collection dtype: string - name: question dtype: string - name: answer dtype: string splits: - name: train num_bytes: 10771811 num_examples: 25389 - name: validation num_bytes: 1288952 num_examples: 3139 - name: test num_bytes: 1346545 num_examples: 3170 download_size: 6735159 dataset_size: 13407308 - config_name: cellxgene-celltype-given-marker-genes features: - name: question_type dtype: string - name: question dtype: string - name: answer dtype: string - name: tissue dtype: string splits: - name: train num_bytes: 809200.2073170731 num_examples: 1836 - name: validation num_bytes: 101370.39634146342 num_examples: 230 - name: test num_bytes: 101370.39634146342 num_examples: 230 download_size: 335760 dataset_size: 1011941.0 - config_name: cellxgene-celltype-pathway-activity-DE-languageQA features: - name: question dtype: string - name: answer dtype: string - name: cell_type_1 dtype: string - name: cell_type_2 dtype: string splits: - name: train num_bytes: 9790494102 num_examples: 13711291 - name: validation num_bytes: 8702682242 num_examples: 12189337 - name: test num_bytes: 1087811860 num_examples: 1521954 download_size: 8070905777 dataset_size: 19580988204 - config_name: cellxgene-celltypeannotation_c2sformat features: - name: question_type dtype: string - name: question dtype: string - name: answer dtype: string - name: cell_type dtype: string - name: cell_file dtype: string - name: reasoning dtype: string splits: - name: train num_bytes: 168647214 num_examples: 196024 - name: validation num_bytes: 21069610 num_examples: 24476 - name: test num_bytes: 21075245 num_examples: 24500 download_size: 57099673 dataset_size: 210792069 - config_name: cellxgene-disease-state-prediction features: - name: question_type dtype: string - name: question dtype: string - name: answer dtype: string - name: cell_type dtype: string - name: disease_state dtype: string - name: tissue dtype: string - name: dataset_name dtype: string - name: data_path dtype: string splits: - name: train num_bytes: 59069905 num_examples: 52662 - name: validation num_bytes: 7378526 num_examples: 6581 - name: test num_bytes: 7390810 num_examples: 6586 download_size: 14538157 dataset_size: 73839241 - config_name: cellxgene-gene-regulation-disease-vs-normal features: - name: question_type dtype: string - name: question dtype: string - name: answer dtype: string - name: cell_type dtype: string - name: dataset dtype: string - name: data_path_disease dtype: string - name: data_path_normal dtype: string splits: - name: train num_bytes: 33473832 num_examples: 63586 - name: validation num_bytes: 4177717 num_examples: 7940 - name: test num_bytes: 4179144 num_examples: 7948 download_size: 1991294 dataset_size: 41830693 - config_name: cellxgene-tissue-given-marker-genes features: - name: question_type dtype: string - name: question dtype: string - name: answer dtype: string - name: cell_type dtype: string splits: - name: train num_bytes: 902575.2062588905 num_examples: 2249 - name: validation num_bytes: 112771.73541963016 num_examples: 281 - name: test num_bytes: 113173.05832147937 num_examples: 282 download_size: 376292 dataset_size: 1128520.0 - config_name: collectri-regulon-languageQA features: - name: type dtype: string - name: question dtype: string - name: answer dtype: string splits: - name: train num_bytes: 3005633 num_examples: 18426 - name: validation num_bytes: 365737 num_examples: 2278 - name: test num_bytes: 381681 num_examples: 2301 download_size: 1180414 dataset_size: 3753051 - config_name: depmap-integrative-languageQA features: - name: question dtype: string - name: answer dtype: string - name: category dtype: string - name: model_id dtype: string - name: cell_name dtype: string - name: gene dtype: string - name: is_dependency dtype: float64 - name: moa dtype: string - name: drug dtype: string - name: is_sensitive dtype: float64 - name: cell_file dtype: string splits: - name: train num_bytes: 813930545 num_examples: 241548 - name: validation num_bytes: 100774421 num_examples: 29855 - name: test num_bytes: 101657875 num_examples: 30156 download_size: 615461192 dataset_size: 1016362841 - config_name: perturbqa_gse_gene_qa features: - name: question dtype: string - name: reasoning dtype: string - name: answer dtype: string - name: cell_file dtype: string splits: - name: train num_bytes: 403026.17004048586 num_examples: 666 - name: validation num_bytes: 45385.82995951417 num_examples: 75 - name: test num_bytes: 45385.82995951417 num_examples: 75 download_size: 85831 dataset_size: 493797.8299595142 - config_name: perturbqa_gse_pert_qa features: - name: question dtype: string - name: reasoning dtype: string - name: answer dtype: string - name: cell_file dtype: string splits: - name: train num_bytes: 322173.9409937888 num_examples: 579 - name: validation num_bytes: 36168.05900621118 num_examples: 65 - name: test num_bytes: 36168.05900621118 num_examples: 65 download_size: 67936 dataset_size: 394510.0590062112 - config_name: perturbqa_pert_de_qa features: - name: question dtype: string - name: reasoning dtype: string - name: answer dtype: string - name: cell_file dtype: string splits: - name: train num_bytes: 81183624.3 num_examples: 576288 - name: validation num_bytes: 9020402.7 num_examples: 64032 - name: test num_bytes: 9020402.7 num_examples: 64032 download_size: 15571780 dataset_size: 99224429.7 - config_name: perturbqa_pert_de_qa_train_test_split features: - name: question dtype: string - name: reasoning dtype: string - name: answer dtype: string - name: cell_file dtype: string splits: - name: train num_bytes: 73091291 num_examples: 519044 - name: test num_bytes: 17112736 num_examples: 121276 - name: validation num_bytes: 17112736 num_examples: 121276 download_size: 8942512 dataset_size: 107316763 - config_name: perturbqa_pert_dir_qa features: - name: question dtype: string - name: reasoning dtype: string - name: answer dtype: string - name: cell_file dtype: string splits: - name: train num_bytes: 14536287.20305006 num_examples: 88758 - name: validation num_bytes: 1615306.7969499396 num_examples: 9863 - name: test num_bytes: 1615306.7969499396 num_examples: 9863 download_size: 2294527 dataset_size: 17766900.796949938 - config_name: perturbqa_pert_dir_qa_train_test_split features: - name: question dtype: string - name: reasoning dtype: string - name: answer dtype: string - name: cell_file dtype: string splits: - name: train num_bytes: 13027313 num_examples: 79581 - name: test num_bytes: 3124281 num_examples: 19040 - name: validation num_bytes: 3124281 num_examples: 19040 download_size: 1340734 dataset_size: 19275875 configs: - config_name: Joung-diff-celltype-reserve-engineering-languageQA data_files: - split: train path: Joung-diff-celltype-reserve-engineering-languageQA/train-* - split: validation path: Joung-diff-celltype-reserve-engineering-languageQA/validation-* - split: test path: Joung-diff-celltype-reserve-engineering-languageQA/test-* - config_name: Joung-differentiated-pathway-activity-DE-languageQA data_files: - split: train path: Joung-differentiated-pathway-activity-DE-languageQA/train-* - split: validation path: Joung-differentiated-pathway-activity-DE-languageQA/validation-* - split: test path: Joung-differentiated-pathway-activity-DE-languageQA/test-* - config_name: Joung-differentiated-pathway-activity-DE-languageQA- data_files: - split: train path: Joung-differentiated-pathway-activity-DE-languageQA-/train-* - split: validation path: Joung-differentiated-pathway-activity-DE-languageQA-/validation-* - split: test path: Joung-differentiated-pathway-activity-DE-languageQA-/test-* - config_name: Joung-predict-mapped-cell-type-languageQA data_files: - split: train path: Joung-predict-mapped-cell-type-languageQA/train-* - split: validation path: Joung-predict-mapped-cell-type-languageQA/validation-* - split: test path: Joung-predict-mapped-cell-type-languageQA/test-* - config_name: Joung_TF_deg_vs_ctl_languageQA data_files: - split: train path: Joung_TF_deg_vs_ctl_languageQA/train-* - split: validation path: Joung_TF_deg_vs_ctl_languageQA/validation-* - split: test path: Joung_TF_deg_vs_ctl_languageQA/test-* - config_name: PROGENy-pathways-languageQA data_files: - split: train path: PROGENy-pathways-languageQA/train-* - split: validation path: PROGENy-pathways-languageQA/validation-* - split: test path: PROGENy-pathways-languageQA/test-* - config_name: Tahoe100M-de-language-six-celllines data_files: - split: train path: Tahoe100M-de-language-six-celllines/train-* - split: validation path: Tahoe100M-de-language-six-celllines/validation-* - split: test path: Tahoe100M-de-language-six-celllines/test-* - config_name: Xaira-cell-cycle-languageQA data_files: - split: train path: Xaira-cell-cycle-languageQA/train-* - split: validation path: Xaira-cell-cycle-languageQA/validation-* - split: test path: Xaira-cell-cycle-languageQA/test-* - config_name: Xaira-cell-line-origin-languageQA data_files: - split: train path: Xaira-cell-line-origin-languageQA/train-* - split: validation path: Xaira-cell-line-origin-languageQA/validation-* - split: test path: Xaira-cell-line-origin-languageQA/test-* - config_name: Xaira-tissue-origin-languageQA data_files: - split: train path: Xaira-tissue-origin-languageQA/train-* - split: validation path: Xaira-tissue-origin-languageQA/validation-* - split: test path: Xaira-tissue-origin-languageQA/test-* - config_name: bioreason-MSigDB-languageQA data_files: - split: train path: bioreason-MSigDB-languageQA/train-* - split: validation path: bioreason-MSigDB-languageQA/validation-* - split: test path: bioreason-MSigDB-languageQA/test-* - config_name: cellxgene-celltype-given-marker-genes data_files: - split: train path: cellxgene-celltype-given-marker-genes/train-* - split: validation path: cellxgene-celltype-given-marker-genes/validation-* - split: test path: cellxgene-celltype-given-marker-genes/test-* - config_name: cellxgene-celltype-pathway-activity-DE-languageQA data_files: - split: train path: cellxgene-celltype-pathway-activity-DE-languageQA/train-* - split: validation path: cellxgene-celltype-pathway-activity-DE-languageQA/validation-* - split: test path: cellxgene-celltype-pathway-activity-DE-languageQA/test-* - config_name: cellxgene-celltypeannotation_c2sformat data_files: - split: train path: cellxgene-celltypeannotation_c2sformat/train-* - split: validation path: cellxgene-celltypeannotation_c2sformat/validation-* - split: test path: cellxgene-celltypeannotation_c2sformat/test-* - config_name: cellxgene-disease-state-prediction data_files: - split: train path: cellxgene-disease-state-prediction/train-* - split: validation path: cellxgene-disease-state-prediction/validation-* - split: test path: cellxgene-disease-state-prediction/test-* - config_name: cellxgene-gene-regulation-disease-vs-normal data_files: - split: train path: cellxgene-gene-regulation-disease-vs-normal/train-* - split: validation path: cellxgene-gene-regulation-disease-vs-normal/validation-* - split: test path: cellxgene-gene-regulation-disease-vs-normal/test-* - config_name: cellxgene-tissue-given-marker-genes data_files: - split: train path: cellxgene-tissue-given-marker-genes/train-* - split: validation path: cellxgene-tissue-given-marker-genes/validation-* - split: test path: cellxgene-tissue-given-marker-genes/test-* - config_name: collectri-regulon-languageQA data_files: - split: train path: collectri-regulon-languageQA/train-* - split: validation path: collectri-regulon-languageQA/validation-* - split: test path: collectri-regulon-languageQA/test-* - config_name: depmap-integrative-languageQA data_files: - split: train path: depmap-integrative-languageQA/train-* - split: validation path: depmap-integrative-languageQA/validation-* - split: test path: depmap-integrative-languageQA/test-* - config_name: perturbqa_gse_gene_qa data_files: - split: train path: perturbqa_gse_gene_qa/train-* - split: validation path: perturbqa_gse_gene_qa/validation-* - split: test path: perturbqa_gse_gene_qa/test-* - config_name: perturbqa_gse_pert_qa data_files: - split: train path: perturbqa_gse_pert_qa/train-* - split: validation path: perturbqa_gse_pert_qa/validation-* - split: test path: perturbqa_gse_pert_qa/test-* - config_name: perturbqa_pert_de_qa data_files: - split: train path: perturbqa_pert_de_qa/train-* - split: validation path: perturbqa_pert_de_qa/validation-* - split: test path: perturbqa_pert_de_qa/test-* - config_name: perturbqa_pert_de_qa_train_test_split data_files: - split: train path: perturbqa_pert_de_qa_train_test_split/train-* - split: test path: perturbqa_pert_de_qa_train_test_split/test-* - split: validation path: perturbqa_pert_de_qa_train_test_split/validation-* - config_name: perturbqa_pert_dir_qa data_files: - split: train path: perturbqa_pert_dir_qa/train-* - split: validation path: perturbqa_pert_dir_qa/validation-* - split: test path: perturbqa_pert_dir_qa/test-* - config_name: perturbqa_pert_dir_qa_train_test_split data_files: - split: train path: perturbqa_pert_dir_qa_train_test_split/train-* - split: test path: perturbqa_pert_dir_qa_train_test_split/test-* - split: validation path: perturbqa_pert_dir_qa_train_test_split/validation-* ---