├── .DS_Store ├── .Rapp.history ├── README.md ├── example_figures ├── CD3_primary_control_deep_learning_prediction.png ├── CD3_primary_deep_learning_prediction.png ├── CD3_primary_pretrained_control_deep_learning_prediction.png └── CD3_primary_pretrained_deep_learning_prediction.png └── src ├── .DS_Store ├── CGI_Gene_match_human_sorted_header.txt ├── CHALM.py ├── CHALM_4_paired_end.py ├── CHALM_SVD_imputation.py ├── CHALM_dif.py ├── Deep_learning_prediction.py ├── Deep_learning_prediction_pretrained.py ├── Deep_learning_read_process.py ├── Gene_CGI_match_TSS_sorted.txt ├── Human_CGI_bedfile.txt ├── RegionMeth.py ├── Trad_meth_mean.py └── license.txt /.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/JianfengXu93/CHALM/HEAD/.DS_Store -------------------------------------------------------------------------------- /.Rapp.history: -------------------------------------------------------------------------------- 1 | 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