UniPert-G2CP_reproduce
Code and analysis resources for reproducing the UniPert-G2CP study.
파일 탐색기
- fig2BC_compound_moa_class_semantic_analysis.ipynb
- fig2EF_S2_target_multilevel_cluster_visual.ipynb
- fig2G_other_target_cluster_visual.ipynb
- fig2G_S3A_protein_family_cluster_visual.ipynb
- fig2H_S3CD_motif_analysis.ipynb
- fig3C_single_gene_perturbation_results.ipynb
- fig3E_S4F_sciplex3_drug_perturbation_results.ipynb
- fig3G_sciplex3_drug_similarity_distribut.ipynb
- fig3H_HDAC_drug_perturbation_results.ipynb
- fig4EFG_S5BCD_G2CP_validation_results.ipynb
- fig5B_unified_cause_space_visual.ipynb
- fig5C_pairwise_perturbagen_similarity_distribution.ipynb
- fig5D_holdout_CPI Prediction.ipynb
- fig5E_cross_cell_line_validation.ipynb
- fig5FG_S6_PCL_perturbation_cellular_sensiticity_analysis.ipynb
- fig6_cause_effect_joint_analysis_ER_case.ipynb
- figS1C_hparam_grid_search.ipynb
- figS1D_graph_weight_direct_ablation.ipynb
- figS4B_single_gene_perturbation_case.ipynb
- figS4C_two_gene_perturbation_case.ipynb
- figS4E_sciplex3_hierarchical_split.ipynb
- figS5G_CPJUMP1_G2CP_results.ipynb
- __init__.py
- data_utils.py
- gears.py
- inference.py
- model.py
- pertdata.py
- utils.py
- version.py
- cmap_utils.py
- inference_cell_line_chemical_perturb_effect.py
- inference_cell_line_genetic_perturb_effect.py
- run_LINCS_cpf_exps.sh
- run_LINCS_essp_exps.sh
- run_LINCS_pool_exps.sh
- run_LINCS_simf_exps.sh
- run_LINCS_ts_exps.sh
- train_G2CP_cpf.py
- train_G2CP_essp.py
- train_G2CP_pool.py
- train_G2CP_simf.py
- train_G2CP_ts.py
- __init__.py
- _api.py
- _data.py
- _metrics.py
- _model.py
- _module.py
- _plotting.py
- _task.py
- _tuner.py
- _utils.py
- evaluate_models.py
- train_CPA_exps.py
- __init__.py
- data_utils.py
- gears.py
- inference.py
- model.py
- pertdata.py
- utils.py
- version.py
- train_GEARS_exps.py
- cal_new_cpi_unipert_similarity.py
- run_chemical_perturbation_benchmark_exps.sh
- run_embedder_gs.sh
- run_genetic_perturbation_benchmark_exps.sh
- run_gnn_ln_od_gs.sh
- run_graph_weight_direct_rd.sh
- __init__.py
- ctcloss.py
- dataset.py
- model.py
- modules.py
- scheduler.py
- utils.py
- train_unipert.py
- .gitignore
- LICENSE
- README.md
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// repository documentation
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