linear_perturbation_prediction-Paper
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최종 버전 다운로드 (.zip)- cpa_env3.yml
- flashattn_env.yml
- gears_env2.yml
- geneformer_env.yml
- scbert_env.yml
- scfoundation_env.yml
- uce_env.yml
- activate.R
- attn_sum_save_modified.py
- collect_perturbation_predictions.R
- extract_gene_embedding_scfoundation.py
- extract_gene_embedding_scgpt.py
- extract_pert_embedding_from_gears.R
- extract_pert_embedding_pca.R
- finetune_modified.py
- prepare_perturbation_data.py
- run_additive_model.py
- run_cpa.py
- run_gears.py
- run_geneformer.py
- run_ground_truth_for_combinatorial_perturbations.py
- run_linear_pretrained_model.R
- run_mean_prediction.R
- run_scbert.py
- run_scfoundation.py
- run_scgpt.py
- run_transfer_perturbation_prediction.R
- run_uce.py
- run_perturbation_benchmark.R
- wrap_scripts.R
- .Rprofile
- README.md
- renv.lock
- model_comparison.ai
- model_comparisonArtboard 1.pdf
- model_comparisonArtboard 1@16x.png
- dataset_overview.html
- dataset_overview.Rmd
- double_perturbation_analysis.html
- double_perturbation_analysis.Rmd
- single_perturbation_analysis.html
- single_perturbation_analysis.Rmd
- util.R
- perturbation_prediction.pdf
- response-deep_learning_specific_calls.pdf
- single_perturbation_prediction.pdf
- suppl-dataset_overview.pdf
- suppl-k562_rpe1_transfer.pdf
- suppl-non_additive_gene_reoccurence.pdf
- suppl-pearson_delta_performance.pdf
- suppl-pearson_delta_performance_single_pert.pdf
- suppl-prediction_variation.pdf
- suppl-qqplot.pdf
- suppl-resource_usage.pdf
- suppl-roc_curves.pdf
- suppl-top_gene_plots.pdf
- .gitignore
- activate.R
- settings.json
- perturbation_prediction.xlsx
- single_perturbation_prediction.xlsx
- suppl-dataset_overview.xlsx
- suppl-k562_rpe1_transfer.xlsx
- suppl-non_additive_gene_reoccurence.xlsx
- suppl-pearson_delta_performance.xlsx
- suppl-pearson_delta_performance_single_pert.xlsx
- suppl-qqplot.xlsx
- suppl-resource_usage.xlsx
- suppl-top_gene_plots.xlsx
- .gitignore
- .renvignore
- .Rprofile
- copy_benchmark_project.sh
- LICENSE.md
- perturbation_prediction-figures.Rproj
- README.md
- render_notebooks.sh
- renv.lock
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