MClarke1991/mg-s2-gears-pretrained

GEARS pre-trained checkpoint + Norman 2019 training data

These data are not produced by this project. They are cached here for reproducible benchmarking.

Original source

Field	Value
Citation	Roohani et al., 2024 (GEARS); Norman et al., 2019 (data)
License	MIT (GEARS code); see Norman et al. for data
Download	https://github.com/snap-stanford/GEARS

Contents

Subdirectories included:

• pre-trained-checkpoints/gears/ -- config.pkl, model.pt
• training/gears/ -- cell_graphs.pkl, combo_seen2_1_0.85_0.4_20_co_expression_network.csv, norman_umi_go_combo_seen2_1_0.85.pkl, norman_umi_go_combo_seen2_1_0.85_AHR+FEV.pkl, norman_umi_go_combo_seen2_1_0.85_AHR+KLF1.pkl, norman_umi_go_combo_seen2_1_0.85_BCL2L11+BAK1.pkl, norman_umi_go_combo_seen2_1_0.85_BCL2L11+TGFBR2.pkl, norman_umi_go_combo_seen2_1_0.85_BPGM+SAMD1.pkl, norman_umi_go_combo_seen2_1_0.85_BPGM+ZBTB1.pkl, norman_umi_go_combo_seen2_1_0.85_C3orf72+FOXL2.pkl, norman_umi_go_combo_seen2_1_0.85_CBL+CNN1.pkl, norman_umi_go_combo_seen2_1_0.85_CBL+PTPN12.pkl, norman_umi_go_combo_seen2_1_0.85_CBL+PTPN9.pkl, norman_umi_go_combo_seen2_1_0.85_CBL+TGFBR2.pkl, norman_umi_go_combo_seen2_1_0.85_CBL+UBASH3A.pkl, norman_umi_go_combo_seen2_1_0.85_CBL+UBASH3B.pkl, norman_umi_go_combo_seen2_1_0.85_CDKN1B+CDKN1A.pkl, norman_umi_go_combo_seen2_1_0.85_CDKN1C+CDKN1A.pkl, norman_umi_go_combo_seen2_1_0.85_CDKN1C+CDKN1B.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPB+CEBPA.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPB+MAPK1.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPB+OSR2.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPB+PTPN12.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPE+CEBPA.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPE+CEBPB.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPE+CNN1.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPE+KLF1.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPE+PTPN12.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPE+RUNX1T1.pkl, norman_umi_go_combo_seen2_1_0.85_CEBPE+SPI1.pkl, norman_umi_go_combo_seen2_1_0.85_CNN1+MAPK1.pkl, norman_umi_go_combo_seen2_1_0.85_CNN1+UBASH3A.pkl, norman_umi_go_combo_seen2_1_0.85_DUSP9+ETS2.pkl, norman_umi_go_combo_seen2_1_0.85_DUSP9+IGDCC3.pkl, norman_umi_go_combo_seen2_1_0.85_DUSP9+KLF1.pkl, norman_umi_go_combo_seen2_1_0.85_DUSP9+MAPK1.pkl, norman_umi_go_combo_seen2_1_0.85_DUSP9+PRTG.pkl, norman_umi_go_combo_seen2_1_0.85_DUSP9+SNAI1.pkl, norman_umi_go_combo_seen2_1_0.85_ETS2+CEBPE.pkl, norman_umi_go_combo_seen2_1_0.85_ETS2+CNN1.pkl, norman_umi_go_combo_seen2_1_0.85_ETS2+IGDCC3.pkl, norman_umi_go_combo_seen2_1_0.85_ETS2+IKZF3.pkl, norman_umi_go_combo_seen2_1_0.85_ETS2+MAP7D1.pkl, norman_umi_go_combo_seen2_1_0.85_ETS2+MAPK1.pkl, norman_umi_go_combo_seen2_1_0.85_ETS2+PRTG.pkl, norman_umi_go_combo_seen2_1_0.85_FEV+CBFA2T3.pkl, norman_umi_go_combo_seen2_1_0.85_FEV+ISL2.pkl, norman_umi_go_combo_seen2_1_0.85_FEV+MAP7D1.pkl, norman_umi_go_combo_seen2_1_0.85_FOSB+CEBPB.pkl, norman_umi_go_combo_seen2_1_0.85_FOSB+CEBPE.pkl, norman_umi_go_combo_seen2_1_0.85_FOSB+IKZF3.pkl, norman_umi_go_combo_seen2_1_0.85_FOSB+OSR2.pkl, norman_umi_go_combo_seen2_1_0.85_FOSB+PTPN12.pkl, norman_umi_go_combo_seen2_1_0.85_FOSB+UBASH3B.pkl, norman_umi_go_combo_seen2_1_0.85_FOXA1+FOXF1.pkl, norman_umi_go_combo_seen2_1_0.85_FOXA1+FOXL2.pkl, norman_umi_go_combo_seen2_1_0.85_FOXA1+HOXB9.pkl, norman_umi_go_combo_seen2_1_0.85_FOXA3+FOXA1.pkl, norman_umi_go_combo_seen2_1_0.85_FOXA3+FOXF1.pkl, norman_umi_go_combo_seen2_1_0.85_FOXA3+FOXL2.pkl, norman_umi_go_combo_seen2_1_0.85_FOXA3+HOXB9.pkl, norman_umi_go_combo_seen2_1_0.85_FOXF1+FOXL2.pkl, norman_umi_go_combo_seen2_1_0.85_FOXF1+HOXB9.pkl, norman_umi_go_combo_seen2_1_0.85_FOXL2+HOXB9.pkl, norman_umi_go_combo_seen2_1_0.85_FOXL2+MEIS1.pkl, norman_umi_go_combo_seen2_1_0.85_IGDCC3+MAPK1.pkl, norman_umi_go_combo_seen2_1_0.85_IGDCC3+PRTG.pkl, norman_umi_go_combo_seen2_1_0.85_IGDCC3+ZBTB25.pkl, norman_umi_go_combo_seen2_1_0.85_IRF1+SET.pkl, norman_umi_go_combo_seen2_1_0.85_JUN+CEBPA.pkl, norman_umi_go_combo_seen2_1_0.85_JUN+CEBPB.pkl, norman_umi_go_combo_seen2_1_0.85_KIF18B+KIF2C.pkl, norman_umi_go_combo_seen2_1_0.85_KLF1+BAK1.pkl, norman_umi_go_combo_seen2_1_0.85_KLF1+CEBPA.pkl, norman_umi_go_combo_seen2_1_0.85_KLF1+CLDN6.pkl, norman_umi_go_combo_seen2_1_0.85_KLF1+COL2A1.pkl, norman_umi_go_combo_seen2_1_0.85_KLF1+FOXA1.pkl, norman_umi_go_combo_seen2_1_0.85_KLF1+MAP2K6.pkl, norman_umi_go_combo_seen2_1_0.85_KLF1+TGFBR2.pkl, norman_umi_go_combo_seen2_1_0.85_LHX1+ELMSAN1.pkl, norman_umi_go_combo_seen2_1_0.85_LYL1+CEBPB.pkl, norman_umi_go_combo_seen2_1_0.85_LYL1+IER5L.pkl, norman_umi_go_combo_seen2_1_0.85_MAP2K3+ELMSAN1.pkl, norman_umi_go_combo_seen2_1_0.85_MAP2K3+IKZF3.pkl, norman_umi_go_combo_seen2_1_0.85_MAP2K3+MAP2K6.pkl, norman_umi_go_combo_seen2_1_0.85_MAP2K3+SLC38A2.pkl, norman_umi_go_combo_seen2_1_0.85_MAP2K6+ELMSAN1.pkl, norman_umi_go_combo_seen2_1_0.85_MAP2K6+IKZF3.pkl, norman_umi_go_combo_seen2_1_0.85_MAP2K6+SPI1.pkl, norman_umi_go_combo_seen2_1_0.85_MAPK1+IKZF3.pkl, norman_umi_go_combo_seen2_1_0.85_MAPK1+PRTG.pkl, norman_umi_go_combo_seen2_1_0.85_MAPK1+TGFBR2.pkl, norman_umi_go_combo_seen2_1_0.85_PLK4+STIL.pkl, norman_umi_go_combo_seen2_1_0.85_POU3F2+CBFA2T3.pkl, norman_umi_go_combo_seen2_1_0.85_POU3F2+FOXL2.pkl, norman_umi_go_combo_seen2_1_0.85_PRDM1+CBFA2T3.pkl, norman_umi_go_combo_seen2_1_0.85_PTPN12+OSR2.pkl, norman_umi_go_combo_seen2_1_0.85_PTPN12+PTPN9.pkl, norman_umi_go_combo_seen2_1_0.85_PTPN12+SNAI1.pkl, norman_umi_go_combo_seen2_1_0.85_PTPN12+UBASH3A.pkl, norman_umi_go_combo_seen2_1_0.85_PTPN12+ZBTB25.pkl, norman_umi_go_combo_seen2_1_0.85_RHOXF2BB+SET.pkl, norman_umi_go_combo_seen2_1_0.85_RHOXF2BB+ZBTB25.pkl, norman_umi_go_combo_seen2_1_0.85_SAMD1+PTPN12.pkl, norman_umi_go_combo_seen2_1_0.85_SAMD1+TGFBR2.pkl, norman_umi_go_combo_seen2_1_0.85_SAMD1+UBASH3B.pkl, norman_umi_go_combo_seen2_1_0.85_SAMD1+ZBTB1.pkl, norman_umi_go_combo_seen2_1_0.85_SET+CEBPE.pkl, norman_umi_go_combo_seen2_1_0.85_SET+KLF1.pkl, norman_umi_go_combo_seen2_1_0.85_SGK1+S1PR2.pkl, norman_umi_go_combo_seen2_1_0.85_SGK1+TBX2.pkl, norman_umi_go_combo_seen2_1_0.85_SGK1+TBX3.pkl, norman_umi_go_combo_seen2_1_0.85_SNAI1+DLX2.pkl, norman_umi_go_combo_seen2_1_0.85_SNAI1+UBASH3B.pkl, norman_umi_go_combo_seen2_1_0.85_TBX3+TBX2.pkl, norman_umi_go_combo_seen2_1_0.85_TGFBR2+C19orf26.pkl, norman_umi_go_combo_seen2_1_0.85_TGFBR2+ETS2.pkl, norman_umi_go_combo_seen2_1_0.85_TGFBR2+IGDCC3.pkl, norman_umi_go_combo_seen2_1_0.85_TGFBR2+PRTG.pkl, norman_umi_go_combo_seen2_1_0.85_TMSB4X+BAK1.pkl, norman_umi_go_combo_seen2_1_0.85_UBASH3B+CNN1.pkl, norman_umi_go_combo_seen2_1_0.85_UBASH3B+OSR2.pkl, norman_umi_go_combo_seen2_1_0.85_UBASH3B+PTPN12.pkl, norman_umi_go_combo_seen2_1_0.85_UBASH3B+PTPN9.pkl, norman_umi_go_combo_seen2_1_0.85_UBASH3B+UBASH3A.pkl, norman_umi_go_combo_seen2_1_0.85_UBASH3B+ZBTB25.pkl, norman_umi_go_combo_seen2_1_0.85_ZBTB10+DLX2.pkl, norman_umi_go_combo_seen2_1_0.85_ZBTB10+ELMSAN1.pkl, norman_umi_go_combo_seen2_1_0.85_ZBTB10+PTPN12.pkl, norman_umi_go_combo_seen2_1_0.85_ZBTB10+SNAI1.pkl, norman_umi_go_combo_seen2_1_0.85_ZC3HAV1+CEBPA.pkl, norman_umi_go_combo_seen2_1_0.85_ZC3HAV1+CEBPE.pkl, norman_umi_go_combo_seen2_1_0.85_ZC3HAV1+HOXC13.pkl, norman_umi_go_combo_seen2_1_0.85_ZNF318+FOXL2.pkl, perturb_processed.h5ad

Purpose

Private cache to restore pre-trained checkpoints and training data without manual Google Drive downloads.