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feat: add the method 'compute_correlation' and others to class TestEv…

dzyimpushed 1 commit to main • 0f77452…2202fde • 
on Apr 29, 2024

feat: add class 'TestEvaluation' for evaluation by differential gene …

dzyimpushed 1 commit to main • 1c23938…0f77452 • 
on Apr 28, 2024

chore: fix indentation in trainer.py

dzyimpushed 1 commit to main • 6540979…1c23938 • 
on Jan 16, 2024

feat: add the debug_mode parameter in the toml files and implement de…

dzyimpushed 1 commit to main • 34bb341…6540979 • 
on Jan 16, 2024

fix: Logging test metrics in every epoch; Revert the commit 4cd218a

dzyimpushed 1 commit to main • e94f248…34bb341 • 
on Jan 11, 2024

refactor: Now getting tokenized data before creating dataloaders

dzyimpushed 1 commit to main • f536989…e94f248 • 
on Dec 20, 2023

refactor: Run set_dataloader() of PertData in prepare_data() of Trainer

dzyimpushed 1 commit to main • d64a5f9…f536989 • 
on Dec 17, 2023

fix: Use the 'keep_ctrl' parameter in class DataSplitter

dzyimpushed 1 commit to main • 19732b3…d64a5f9 • 
on Nov 10, 2023

Update README.md

dzyimpushed 1 commit to main • d4e2952…19732b3 • 
on Nov 9, 2023

Deleted branch

dzyimdeleted temp • 
on Nov 8, 2023

feat: Add the DataSplitter class in perturb/data

dzyimpushed 1 commit to main • e3d0933…d4e2952 • 
on Nov 8, 2023

feat: Add the DataSplitter class

dzyimcreated temp • 7ae7374 • 
on Nov 6, 2023

feat: Add a method get_output_dict() in class Trainer

dzyimpushed 1 commit to main • 476181a…e3d0933 • 
on Nov 1, 2023

add Adversarial Siamese-scGPTs Class and finetune_drug_ad_siamese_per…

lunersonguopushed 1 commit to main • a3f0645…476181a • 
on Oct 31, 2023

feat: Allow arbitrary length inputs for the Transformer4Cmpd model an…

dzyimpushed 1 commit to main • 4e2a43b…a3f0645 • 
on Oct 20, 2023

fix: Fix the wrong de_idx and the error in plot_perturb()

dzyimpushed 1 commit to main • 4cd218a…4e2a43b • 
on Oct 12, 2023

fix: Fixed the bug of increasing memory usage in Trainer.fit()

dzyimpushed 1 commit to main • f73b6f9…4cd218a • 
on Oct 9, 2023

improve Compound Encoder Part: adding Deeper GAT layers and features …

lunersonguopushed 1 commit to main • 97421d3…f73b6f9 • 
on Oct 7, 2023

fix: Fix a bug in the method _drop_NA_genes() of PertBase

dzyimpushed 1 commit to main • 8a87e81…97421d3 • 
on Sep 27, 2023

fix: Fix a bug in the method get_pert_flags() of class PertData

dzyimpushed 1 commit to main • 712c1f8…8a87e81 • 
on Sep 26, 2023

feat: Add plot_corr_matrix() in perturb.metrics and corr_heatmaps() a…

dzyimpushed 1 commit to main • 0a71732…712c1f8 • 
on Sep 22, 2023

feat: add write_json() and write_pickle() in perturb/utils/

dzyimpushed 1 commit to main • e48ac5e…0a71732 • 
on Sep 18, 2023

fix: a fix for _check_mode() method in DataModule

dzyimpushed 1 commit to main • 5e088ca…e48ac5e • 
on Sep 13, 2023

Update README.md

dzyimpushed 1 commit to main • 3190b81…5e088ca • 
on Sep 11, 2023

feat: Add metrics for delta values (i.e. pert values minus ctrl values)

dzyimpushed 1 commit to main • 96207f0…3190b81 • 
on Sep 11, 2023

add metrics (#2)

Pull request merge
dzyimpushed 1 commit to main • 3e84c37…96207f0 • 
on Sep 8, 2023

test: Add task examples

dzyimpushed 1 commit to main • 52632a0…3e84c37 • 
on Sep 5, 2023

feat: Add perturb/train/; Add object method 'get_dataloader_for_predi…

dzyimpushed 1 commit to main • 829f974…52632a0 • 
on Sep 5, 2023

feat: Add object method 'create_dataset_for_prediction' in PertData

dzyimpushed 1 commit to main • 1b302fe…829f974 • 
on Aug 31, 2023

fix: fix a NotADirectoryError in _load_adata()

dzyimpushed 3 commits to main • c873021…1b302fe • 
on Aug 29, 2023