| | --- |
| | dataset_info: |
| | - config_name: Joung-diff-celltype-reserve-engineering-languageQA |
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| | - name: answer |
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| | - config_name: Joung-differentiated-pathway-activity-DE-languageQA |
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| | - name: question |
| | dtype: string |
| | - name: answer |
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| | - name: cell_type |
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| | - config_name: Joung-differentiated-pathway-activity-DE-languageQA- |
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| | - name: answer |
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| | - config_name: Joung-predict-mapped-cell-type-languageQA |
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| | - name: question |
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| | - name: answer |
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| | - name: TF_gene |
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| | - name: barcode |
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| | - config_name: Joung_TF_deg_vs_ctl_languageQA |
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| | - config_name: LINCS-languageQA |
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| | - config_name: PROGENy-pathways-languageQA |
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| | - config_name: Tahoe100M-de-language-six-celllines |
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| | - config_name: Xaira-cell-cycle-languageQA |
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| | - config_name: Xaira-cell-line-origin-languageQA |
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| | - config_name: Xaira-tissue-origin-languageQA |
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| | - config_name: bioreason-MSigDB-languageQA |
| | features: |
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| | - config_name: celltypist_qa |
| | features: |
| | - name: question |
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| | - name: answer |
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| | - name: tissue_markers_to_celltype |
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| | - config_name: cellxgene-celltype-given-marker-genes |
| | features: |
| | - name: question_type |
| | dtype: string |
| | - name: question |
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| | - name: answer |
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| | - name: tissue |
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| | - config_name: cellxgene-celltype-pathway-activity-DE-languageQA |
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| | - name: answer |
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| | - config_name: cellxgene-celltypeannotation_c2sformat |
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| | - config_name: cellxgene-disease-pathway-activity-DE-languageQA |
| | features: |
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| | - name: answer |
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| | - name: data_path_normal |
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| | - config_name: cellxgene-disease-state-prediction |
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| | - name: disease_state |
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| | - config_name: cellxgene-gene-regulation-disease-vs-normal |
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| | - config_name: cellxgene-tissue-given-marker-genes |
| | features: |
| | - name: question_type |
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| | - name: question |
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| | - config_name: collectri-regulon-languageQA |
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| | - config_name: depmap-integrative-languageQA |
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| | - config_name: msigdb-geneset-catalog |
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| | - config_name: panglaodb_qa_markers_to_celltype |
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| | - config_name: panglaodb_qa_species_organ_markers_to_celltype |
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| | - config_name: perturbQA-DE-Vision-languageQA |
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| | - config_name: perturbqa_gse_gene_qa |
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| | - config_name: perturbqa_gse_pert_qa |
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| | - config_name: perturbqa_pert_de_qa |
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| | - config_name: perturbqa_pert_de_qa_train_test_split |
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| | - config_name: perturbqa_pert_dir_qa |
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| | - config_name: perturbqa_pert_dir_qa_train_test_split |
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| | - config_name: reasoning-collecTRI-knowledge |
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| | - config_name: reasoning-scBaseCount-differential-Vision |
| | features: |
| | - name: srx_accession |
| | dtype: large_string |
| | - name: cell_id |
| | dtype: large_string |
| | - name: cell_type |
| | dtype: large_string |
| | - name: cell_file |
| | dtype: large_string |
| | - name: up_pathways |
| | dtype: large_string |
| | - name: down_pathways |
| | dtype: large_string |
| | splits: |
| | - name: train |
| | - name: validation |
| | - name: test |
| | download_size: 88180443100 |
| | dataset_size: 250644994904 |
| | - config_name: reasoning_nadig_replogle |
| | features: |
| | - name: gene_target |
| | dtype: string |
| | - name: protein_target |
| | dtype: string |
| | - name: cell_type |
| | dtype: string |
| | - name: tissue_type |
| | dtype: string |
| | - name: up_pathways |
| | list: string |
| | - name: down_pathways |
| | list: string |
| | - name: unchanged_pathways |
| | list: string |
| | - name: experiment |
| | dtype: string |
| | - name: cell_file |
| | dtype: string |
| | splits: |
| | - name: train |
| | num_bytes: 48606335 |
| | num_examples: 959 |
| | - name: test |
| | num_bytes: 63919601 |
| | num_examples: 1053 |
| | download_size: 4896374 |
| | dataset_size: 112525936 |
| | - config_name: reasoning_nadig_replogle_SEPARATED_PATHWAYS |
| | features: |
| | - name: gene_target |
| | dtype: string |
| | - name: protein_target |
| | dtype: string |
| | - name: cell_type |
| | dtype: string |
| | - name: tissue_type |
| | dtype: string |
| | - name: pathway_name |
| | dtype: string |
| | - name: pathway_change |
| | dtype: string |
| | - name: pathway_score |
| | dtype: float64 |
| | - name: experiment |
| | dtype: string |
| | - name: cell_file |
| | dtype: string |
| | splits: |
| | - name: train |
| | num_bytes: 282231252 |
| | num_examples: 1122415 |
| | - name: test |
| | num_bytes: 371936771 |
| | num_examples: 1476786 |
| | download_size: 28261190 |
| | dataset_size: 654168023 |
| | 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: LINCS-languageQA |
| | data_files: |
| | - split: train |
| | path: LINCS-languageQA/train-* |
| | - split: validation |
| | path: LINCS-languageQA/validation-* |
| | - split: test |
| | path: LINCS-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: celltypist_qa |
| | data_files: |
| | - split: markers_to_celltype |
| | path: celltypist_qa/markers_to_celltype-* |
| | - split: tissue_markers_to_celltype |
| | path: celltypist_qa/tissue_markers_to_celltype-* |
| | - 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-pathway-activity-DE-languageQA |
| | data_files: |
| | - split: train |
| | path: cellxgene-disease-pathway-activity-DE-languageQA/train-* |
| | - split: validation |
| | path: cellxgene-disease-pathway-activity-DE-languageQA/validation-* |
| | - split: test |
| | path: cellxgene-disease-pathway-activity-DE-languageQA/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: msigdb-geneset-catalog |
| | data_files: |
| | - split: train |
| | path: msigdb-geneset-catalog/train-* |
| | - config_name: panglaodb_qa_markers_to_celltype |
| | data_files: |
| | - split: train |
| | path: panglaodb_qa_markers_to_celltype/train-* |
| | - config_name: panglaodb_qa_species_organ_markers_to_celltype |
| | data_files: |
| | - split: train |
| | path: panglaodb_qa_species_organ_markers_to_celltype/train-* |
| | - config_name: pathways |
| | data_files: |
| | - split: pathways |
| | path: pathways/pathways-* |
| | - config_name: perturbQA-DE-Vision-languageQA |
| | data_files: |
| | - split: train |
| | path: perturbQA-DE-Vision-languageQA/train-* |
| | - split: validation |
| | path: perturbQA-DE-Vision-languageQA/validation-* |
| | - split: test |
| | path: perturbQA-DE-Vision-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-* |
| | - config_name: reasoning-collecTRI-knowledge |
| | data_files: |
| | - split: train |
| | path: reasoning-collecTRI-knowledge/train-* |
| | - config_name: reasoning-scBaseCount-differential-Vision |
| | data_files: |
| | - split: train |
| | path: |
| | - reasoning-scBaseCount-differential-Vision/train_* |
| | - data/train_*/data-*.parquet |
| | - split: validation |
| | path: |
| | - reasoning-scBaseCount-differential-Vision/validation_* |
| | - data/validation_*/data-*.parquet |
| | - split: test |
| | path: |
| | - reasoning-scBaseCount-differential-Vision/test_* |
| | - data/test_*/data-*.parquet |
| | - config_name: reasoning_nadig_replogle |
| | data_files: |
| | - split: train |
| | path: reasoning_nadig_replogle/train-* |
| | - split: test |
| | path: reasoning_nadig_replogle/test-* |
| | - config_name: reasoning_nadig_replogle_SEPARATED_PATHWAYS |
| | data_files: |
| | - split: train |
| | path: reasoning_nadig_replogle_SEPARATED_PATHWAYS/train-* |
| | - split: test |
| | path: reasoning_nadig_replogle_SEPARATED_PATHWAYS/test-* |
| | --- |
| | |
