JiaruiLi/DeepHealth
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  • d728d8585c Improve all-future first-onset training master Jiarui Li 2026-08-21 13:48:59 +08:00
  • 9ccc6b56ec Revert "Add switchable DIFF V1 attention" Jiarui Li 2026-08-21 13:16:39 +08:00
  • bf5cae8758 Add switchable DIFF V1 attention Jiarui Li 2026-08-21 11:48:16 +08:00
  • 75c9f06114 Export Weibull parameters to one HDF5 file Jiarui Li 2026-08-05 12:54:14 +08:00
  • d27eca3f3d Add individual Weibull parameter exporter Jiarui Li 2026-08-05 11:02:35 +08:00
  • f1ca401783 feat: force recompute AUC batch evaluations Jiarui Li 2026-08-03 14:02:09 +08:00
  • e040707d07 fix: evaluate AUC on fixed test EIDs Jiarui Li 2026-08-03 13:56:06 +08:00
  • 271a678e73 Fix calibration death token lookup Jiarui Li 2026-08-03 08:33:21 +08:00
  • 4f102fb271 Add complete experiment rerun workflow Jiarui Li 2026-08-01 14:35:39 +08:00
  • de6f9b75b9 Remove legacy event and mixed distribution paths Jiarui Li 2026-08-01 14:23:18 +08:00
  • dfb22adf2d Add train-split robust scaling for continuous values Jiarui Li 2026-08-01 11:37:21 +08:00
  • 89dcf4b362 Train assessment smoking and alcohol model Jiarui Li 2026-07-31 13:14:35 +08:00
  • efd18f1be2 Add assessment and all extra-info experiments Jiarui Li 2026-07-31 11:12:11 +08:00
  • 4580058687 Optimize calibration evaluation Jiarui Li 2026-07-30 18:29:15 +08:00
  • e471de030d Add all-future calibration evaluation Jiarui Li 2026-07-30 17:21:57 +08:00
  • c622ec50f7 Add disease history ablation modes Jiarui Li 2026-07-29 13:53:15 +08:00
  • 31f129a7dc Add recursive AUC evaluation script Jiarui Li 2026-07-27 12:54:02 +08:00
  • 059c756686 Add key-model multiseed training script Jiarui Li 2026-07-27 10:38:11 +08:00
  • e016ac501c feat: add multi-GPU batch training matrix Jiarui Li 2026-07-25 14:53:31 +08:00
  • 315f552301 refactor: isolate Delphi2M next-token pipeline Jiarui Li 2026-07-25 14:22:36 +08:00
  • 15ace878f4 Remove obsolete evaluation and batch scripts Jiarui Li 2026-07-25 13:14:42 +08:00
  • b13db5e407 Unify FFN and TrajMixer model architectures codex/unify-model-architectures Jiarui Li 2026-07-25 12:59:09 +08:00
  • 4526191fe1 Report AUCs in Delphi2M format Jiarui Li 2026-07-25 11:15:06 +08:00
  • f7d6cda8b6 Report AUCs in Delphi2M format TrajMixer Jiarui Li 2026-07-25 11:15:06 +08:00
  • 8d0d71292e Refactor TrajMixer to single residual Jiarui Li 2026-07-24 15:25:02 +08:00
  • 3af823f2e1 Fix RBF time-bias initialization Jiarui Li 2026-07-24 14:43:59 +08:00
  • 7b48cb8425 Fix RBF time-bias initialization Jiarui Li 2026-07-24 14:39:15 +08:00
  • 20c99484f3 Add two-stage TrajMixer mixing Jiarui Li 2026-07-24 10:51:41 +08:00
  • 85352dae0f Revert "Implement shared event-trajectory reasoning backbone" Jiarui Li 2026-07-23 16:05:00 +08:00
  • 22faee7c51 Revert "Add nano and tiny model presets" Jiarui Li 2026-07-23 16:03:29 +08:00
  • 6f7b5be405 Add nano and tiny model presets Jiarui Li 2026-07-23 15:01:33 +08:00
  • 06f29c0f0a Implement shared event-trajectory reasoning backbone Jiarui Li 2026-07-23 14:23:34 +08:00
  • 68a6a3df88 Scale TrajMixer hidden width with head count Jiarui Li 2026-07-22 16:14:52 +08:00
  • 978c88a4ed Log and save model parameter counts Jiarui Li 2026-07-22 14:44:31 +08:00
  • db0947ce9d Implement TrajMixer block Jiarui Li 2026-07-22 11:52:44 +08:00
  • f6bde7e167 Add t-query logits and hidden export script Jiarui Li 2026-07-08 17:29:25 +08:00
  • 0ff0b6d861 Add script to compute landmark future death and incident disease risks Jiarui Li 2026-07-01 17:45:17 +08:00
  • bf31aa0432 Avoid multiprocessing data loader for shape export Jiarui Li 2026-07-01 15:37:36 +08:00
  • d08e5b34f4 Add Weibull shape export scripts Jiarui Li 2026-07-01 15:31:31 +08:00
  • f417a91a74 Parallelize extra-info summary reduction Jiarui Li 2026-07-01 13:21:08 +08:00
  • e3c9ecd19f Batch extra-info disease attribution stats Jiarui Li 2026-07-01 12:47:30 +08:00
  • d3e68ac09b Avoid overflow in attribution variance Jiarui Li 2026-07-01 10:58:09 +08:00
  • 16df74c04d Skip attribution for next-token runs Jiarui Li 2026-07-01 10:47:09 +08:00
  • d9dc115e09 Report disease parameter attribution Jiarui Li 2026-07-01 10:16:51 +08:00
  • 3cf756ccb0 Add landmark attribution dependencies Jiarui Li 2026-07-01 09:55:38 +08:00
  • 93450ab06b Update missing evaluation runner Jiarui Li 2026-07-01 09:19:42 +08:00
  • 84ae07bf48 Add missing training runs script Jiarui Li 2026-06-29 15:40:55 +08:00
  • ca294193f4 Clarify empty extra-info logging Jiarui Li 2026-06-29 11:26:48 +08:00
  • d4a29063d6 Add no extra-info type list Jiarui Li 2026-06-29 11:14:50 +08:00
  • 00ccedf82f Report death distribution parameters for disease attribution Jiarui Li 2026-06-29 10:42:32 +08:00
  • fe826c4052 Defer attribution output until after GPU pass Jiarui Li 2026-06-27 16:11:49 +08:00
  • 980dd7c282 Align disease attribution batching with survival evaluator Jiarui Li 2026-06-27 16:01:35 +08:00
  • 517d573d3b Reduce attribution GPU synchronization Jiarui Li 2026-06-27 15:56:12 +08:00
  • 20686c128f Vectorize per-disease attribution batches Jiarui Li 2026-06-27 15:51:12 +08:00
  • 8928688aca Optimize per-disease attribution scanning Jiarui Li 2026-06-27 15:43:27 +08:00
  • 8ef88ff325 Pad attribution batches before concatenation Jiarui Li 2026-06-27 15:38:32 +08:00
  • a7e969ae51 Summarize disease mortality attribution by age and sex Jiarui Li 2026-06-27 15:33:50 +08:00
  • 34353d33d5 Scan all diseases for mortality attribution Jiarui Li 2026-06-27 15:30:38 +08:00
  • 128a8ce655 Add single-disease mortality attribution script Jiarui Li 2026-06-27 15:24:15 +08:00
  • 01629cec56 Fix mortality attribution active rows Jiarui Li 2026-06-27 14:29:32 +08:00
  • 2ae92da0ec Stream mortality attribution batches Jiarui Li 2026-06-27 14:08:02 +08:00
  • 12265bd248 Batch mortality attribution queries Jiarui Li 2026-06-27 13:57:16 +08:00
  • 0b7c866292 Add mortality attribution evaluation Jiarui Li 2026-06-27 13:34:30 +08:00
  • 00de2ff4a9 Fix event-free survival inference tensor use Jiarui Li 2026-06-27 12:08:19 +08:00
  • 307704f74d Simplify event-free survival data loading Jiarui Li 2026-06-27 12:02:48 +08:00
  • 3cd1109249 Add event-free survival evaluation Jiarui Li 2026-06-27 11:48:47 +08:00
  • df6b45b95a Clarify all-future model interpretation Jiarui Li 2026-06-27 10:53:55 +08:00
  • 6df0435f65 Refactor DeepHealth indices around disease expression Jiarui Li 2026-06-26 16:25:36 +08:00
  • 9ec3921bed Add burden trajectory plotting script Jiarui Li 2026-06-26 12:49:21 +08:00
  • fb873326ee Keep burden landmark query times consistent Jiarui Li 2026-06-26 12:24:51 +08:00
  • 7ee29329f5 Write burden CSV shards in workers Jiarui Li 2026-06-26 12:06:57 +08:00
  • 263267f583 Use DataLoader for burden readouts Jiarui Li 2026-06-26 11:50:12 +08:00
  • 2b0b20d231 Use fork for Linux burden workers Jiarui Li 2026-06-26 11:36:52 +08:00
  • c5ecbb79f2 Keep burden reduction on GPU Jiarui Li 2026-06-26 11:27:44 +08:00
  • 63df61e1dd Batch burden index readout computation Jiarui Li 2026-06-26 11:15:15 +08:00
  • ee7d363e3d Support multi-GPU burden index computation Jiarui Li 2026-06-26 10:51:56 +08:00
  • e400dab887 Add burden mapping files and landmark computation Jiarui Li 2026-06-26 10:42:36 +08:00
  • a3bf3a0cd4 Add burden index computation interfaces Jiarui Li 2026-06-25 17:15:56 +08:00
  • 0138cbd95b Add calendar-dated event index utilities Jiarui Li 2026-06-22 17:36:04 +08:00
  • 56421eb3f5 Add dist_mode parameter to evaluate_landmark_auc for improved flexibility in evaluation Jiarui Li 2026-06-22 09:40:08 +08:00
  • 615f395058 Refactor evaluation device handling in AUC scripts for improved clarity and flexibility Jiarui Li 2026-06-20 12:13:58 +08:00
  • e5ecb714ba Refactor loss computation and model input handling for improved clarity and efficiency Jiarui Li 2026-06-20 11:26:03 +08:00
  • c3cac6dcea Refactor dataset.py to remove caching functionality and related methods for improved simplicity Jiarui Li 2026-06-18 16:25:55 +08:00
  • aa8ec5c3ac Refactor code structure for improved readability and maintainability Jiarui Li 2026-06-18 13:07:35 +08:00
  • 1ea72e9133 Refactor DeepHealth model to expand extra-info token handling and update output structure Jiarui Li 2026-06-17 14:27:07 +08:00
  • 1757bcd25b Refactor DeepHealth model and related components Jiarui Li 2026-06-17 11:05:10 +08:00
  • 27aefb2f90 Refactor run directory creation to use a unique naming function in training scripts Jiarui Li 2026-06-15 14:54:06 +08:00
  • 36ec36c8a8 Add time attention mask handling and baseline class time computation to DeepHealth model Jiarui Li 2026-06-15 14:35:10 +08:00
  • c3e49db859 Enhance DeepHealth model to incorporate CHECKUP state tokens in next-step training and evaluation, update dataset cache versioning, and improve handling of observed event histories. Jiarui Li 2026-06-15 14:10:09 +08:00
  • 593ecd2e71 Revert cross-attention integration into GPTBlock Jiarui Li 2026-06-15 10:05:13 +08:00
  • c87c3b9f7c Add cross-attention support to GPTBlock and update DeepHealth model integration Jiarui Li 2026-06-13 17:02:04 +08:00
  • 58f253d9b6 Implement parallel processing for DOA AUC evaluation and enhance task management Jiarui Li 2026-06-13 15:45:07 +08:00
  • 76787d2fb2 Add evaluation split handling and dataset subset size to DOA AUC evaluation Jiarui Li 2026-06-13 15:39:31 +08:00
  • 46a3dfe628 Add training scripts for all-future and next-step supervision with DeepHealth Jiarui Li 2026-06-13 11:42:04 +08:00
  • 034d8065a7 Refactor bias handling in AUC evaluation scripts to improve robustness and prevent errors when bias is not defined Jiarui Li 2026-06-12 17:28:22 +08:00
  • 1240766aa9 Enhance training script and evaluation logic to support all-future model target mode and improve error handling for distribution modes Jiarui Li 2026-06-12 11:53:35 +08:00
  • 82f70945d9 Enhance training script to support all-future model target mode and update dataset handling Jiarui Li 2026-06-12 11:49:44 +08:00
  • 3125b6119f Refactor AUC evaluation scripts to support model target modes and improve distribution handling Jiarui Li 2026-06-12 11:33:32 +08:00
  • 0fa8bbbb9a Enhance data parsing and validation, add extra info types files Jiarui Li 2026-06-12 11:16:19 +08:00
  • fc8c7b7177 Refactor code structure for improved readability and maintainability Jiarui Li 2026-06-12 10:40:48 +08:00