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  1. results_new/correlation_comparison.csv +2 -0
  2. results_new/drift_merged_diffae.csv +15 -15
  3. results_new/drift_merged_diffae_lag2.csv +15 -15
  4. results_new/drift_merged_tvae.csv +16 -0
  5. results_new/drift_merged_tvae_lag2.csv +16 -0
  6. results_new/drift_merged_vae.csv +15 -15
  7. results_new/drift_merged_vae_lag2.csv +15 -15
  8. results_new/drift_scores_diffae_h1n1.csv +17 -17
  9. results_new/drift_scores_diffae_h1n1_lag2.csv +16 -16
  10. results_new/drift_scores_diffae_h3n2.csv +17 -17
  11. results_new/drift_scores_diffae_h3n2_lag2.csv +16 -16
  12. results_new/drift_scores_tvae_h1n1.csv +18 -0
  13. results_new/drift_scores_tvae_h1n1_lag2.csv +17 -0
  14. results_new/drift_scores_tvae_h3n2.csv +18 -0
  15. results_new/drift_scores_tvae_h3n2_lag2.csv +17 -0
  16. results_new/drift_scores_vae_h1n1.csv +17 -17
  17. results_new/drift_scores_vae_h1n1_lag2.csv +16 -16
  18. results_new/drift_scores_vae_h3n2.csv +17 -17
  19. results_new/drift_scores_vae_h3n2_lag2.csv +16 -16
  20. results_new/full_model_comparison.csv +15 -12
  21. results_new/latent_diversity_diffae_h3n2.csv +18 -18
  22. results_new/latent_diversity_tvae_h3n2.csv +19 -0
  23. results_new/latent_diversity_vae_h3n2.csv +18 -18
  24. results_new/sirc_params_diffae.csv +8 -8
  25. results_new/sirc_params_diffae_combined.csv +7 -7
  26. results_new/sirc_params_diffae_lag2.csv +7 -7
  27. results_new/sirc_params_tvae.csv +11 -0
  28. results_new/sirc_params_vae.csv +8 -8
  29. results_new/sirc_simulation_diffae.csv +13 -13
  30. results_new/sirc_simulation_diffae_combined.csv +13 -13
  31. results_new/sirc_simulation_diffae_lag2.csv +13 -13
  32. results_new/sirc_simulation_tvae.csv +14 -0
  33. results_new/sirc_simulation_vae.csv +13 -13
results_new/correlation_comparison.csv CHANGED
@@ -3,6 +3,8 @@ DiffAE lag-1 (blended),0.4509836398210509,0.09156012139132494,-0.082306783120257
3
  DiffAE lag-2 (blended),0.4255248859601851,0.11380100835183467,-0.15675655456203463,0.8470255585702305,15,"[-0.16, 0.85]"
4
  VAE lag-1 (blended),0.4364357804719848,0.10385510395975796,-0.06938106307033166,0.7790487408719494,15,"[-0.07, 0.78]"
5
  VAE lag-2 (blended),0.3600595188893874,0.18741406766247667,-0.2067294244964042,0.81380181951844,15,"[-0.21, 0.81]"
 
 
6
  Hamming H3N2 lag-1,0.007405376032788813,0.9791035961351728,-0.5507549288055146,0.5589298744299823,15,"[-0.55, 0.56]"
7
  Hamming H3N2 lag-2,0.033958905427861195,0.9043678210462518,-0.5201586903828396,0.579691735485091,15,"[-0.52, 0.58]"
8
  H1N1 co-circulation,0.13939393939393938,0.7009318849100584,-0.7583165363218578,0.8313772647105978,10,"[-0.76, 0.83]"
 
3
  DiffAE lag-2 (blended),0.4255248859601851,0.11380100835183467,-0.15675655456203463,0.8470255585702305,15,"[-0.16, 0.85]"
4
  VAE lag-1 (blended),0.4364357804719848,0.10385510395975796,-0.06938106307033166,0.7790487408719494,15,"[-0.07, 0.78]"
5
  VAE lag-2 (blended),0.3600595188893874,0.18741406766247667,-0.2067294244964042,0.81380181951844,15,"[-0.21, 0.81]"
6
+ TVAE lag-1 (blended),0.45825756949558405,0.08581470399442769,-0.07426181843342064,0.8029953766987926,15,"[-0.07, 0.80]"
7
+ TVAE lag-2 (blended),0.38551827275025324,0.15585899037368892,-0.1715407510391921,0.8280001058131181,15,"[-0.17, 0.83]"
8
  Hamming H3N2 lag-1,0.007405376032788813,0.9791035961351728,-0.5507549288055146,0.5589298744299823,15,"[-0.55, 0.56]"
9
  Hamming H3N2 lag-2,0.033958905427861195,0.9043678210462518,-0.5201586903828396,0.579691735485091,15,"[-0.52, 0.58]"
10
  H1N1 co-circulation,0.13939393939393938,0.7009318849100584,-0.7583165363218578,0.8313772647105978,10,"[-0.76, 0.83]"
results_new/drift_merged_diffae.csv CHANGED
@@ -1,16 +1,16 @@
1
  season,pct_h1n1,pct_h3n2,hosp_rate_overall,covid_excluded,drift_h1n1,drift_h3n2,drift_h1n1_raw,drift_h3n2_raw,drift_blended
2
- 2010-11,,,21.5,False,0.0,0.0,0.24804329872131348,0.6334858536720276,0.0
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- 2011-12,,,8.7,False,0.4273015856742859,0.0,0.4716861844062805,0.35191088914871216,0.0
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- 2012-13,,,44.0,False,0.163345068693161,1.0,0.3335355222225189,0.8725024461746216,0.0
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- 2013-14,,,35.1,False,0.4886309802532196,0.2715979516506195,0.5037850141525269,0.49330249428749084,0.0
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- 2014-15,,,64.1,False,1.0,0.14287497103214264,1.3685952425003052,0.4262903928756714,0.0
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- 2015-16,0.545,0.154,31.4,False,1.0,0.1592789888381958,1.6669156551361084,0.4348301887512207,0.5695289642810822
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- 2016-17,0.024,0.744,62.0,False,0.0,0.3544546365737915,0.22882786393165588,0.5364369750022888,0.2637142496109009
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- 2017-18,0.11,0.597,102.9,False,0.23939603567123413,0.6978965401649475,0.5731003880500793,0.7152299284934998,0.4429777984023094
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- 2018-19,0.52,0.42,63.6,False,0.01841057650744915,1.0,0.25530388951301575,1.0809435844421387,0.42957349978387355
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- 2019-20,0.531,0.041,66.0,False,0.14152944087982178,0.9556304812431335,0.43235963582992554,1.048596739768982,0.11433298283815385
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- 2021-22,0.005,0.986,17.5,False,0.22006897628307343,0.0,0.545306384563446,0.13375942409038544,0.0011003448814153672
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- 2022-23,0.289,0.654,62.4,False,0.09678341448307037,0.6215327978134155,0.36801090836524963,0.7248053550720215,0.43445285655558114
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- 2023-24,0.479,0.27,83.5,False,0.0,0.8863349556922913,0.22312119603157043,0.9766187071800232,0.23931043803691865
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- 2024-25,0.496,0.437,126.2,False,0.19731348752975464,0.18942971527576447,0.5080013275146484,0.31389740109443665,0.18064827539026737
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- 2025-26,0.111,0.808,78.2,False,0.20793618261814117,1.0,0.5233383178710938,1.1456091403961182,0.8310809162706138
 
1
  season,pct_h1n1,pct_h3n2,hosp_rate_overall,covid_excluded,drift_h1n1,drift_h3n2,drift_h1n1_raw,drift_h3n2_raw,drift_blended
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+ 2010-11,,,21.5,False,0.0,0.0,0.24803346395492554,0.6334459185600281,0.0
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+ 2016-17,0.024,0.744,62.0,False,0.0,0.3545043468475342,0.22882859408855438,0.5364422798156738,0.2637512340545654
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+ 2017-18,0.11,0.597,102.9,False,0.23939943313598633,0.6978687644004822,0.5731173753738403,0.7152289748191833,0.4429615899920463
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+ 2018-19,0.52,0.42,63.6,False,0.018407057970762253,1.0,0.2553004324436188,1.0809414386749268,0.42957167014479636
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+ 2019-20,0.531,0.041,66.0,False,0.1415252834558487,0.9556407332420349,0.43236109614372253,1.0485997200012207,0.11433119557797909
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+ 2021-22,0.005,0.986,17.5,False,0.22000405192375183,0.0,0.5452241897583008,0.13374482095241547,0.0011000202596187592
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+ 2022-23,0.289,0.654,62.4,False,0.09678128361701965,0.6215881705284119,0.3680131733417511,0.7248035669326782,0.4344884544909
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+ 2023-24,0.479,0.27,83.5,False,0.0,0.8864315748214722,0.2231203019618988,0.9766391515731812,0.2393365252017975
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+ 2024-25,0.496,0.437,126.2,False,0.19730807840824127,0.18943163752555847,0.5080022811889648,0.31387248635292053,0.18064643248915674
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+ 2025-26,0.111,0.808,78.2,False,0.20791901648044586,1.0,0.5233228206634521,1.1456024646759033,0.8310790108293296
results_new/drift_merged_diffae_lag2.csv CHANGED
@@ -1,16 +1,16 @@
1
  season,pct_h1n1,pct_h3n2,hosp_rate_overall,covid_excluded,drift_h1n1,drift_h3n2,drift_h1n1_raw,drift_h3n2_raw,drift_blended
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- 2010-11,,,21.5,False,0.5,0.5,0.7832880616188049,0.8495582938194275,0.0
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- 2011-12,,,8.7,False,0.0,0.0,0.6247504353523254,0.6389322280883789,0.0
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- 2012-13,,,44.0,False,0.0,1.0,0.3142639696598053,1.1452711820602417,0.0
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- 2013-14,,,35.1,False,1.0,0.9232707023620605,0.7889003753662109,1.1064201593399048,0.0
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- 2014-15,,,64.1,False,1.0,0.3624384105205536,1.5993525981903076,0.8224489092826843,0.0
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- 2015-16,0.545,0.154,31.4,False,0.24735169112682343,0.0,0.6321328282356262,0.41793110966682434,0.13480667166411878
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- 2016-17,0.024,0.744,62.0,False,1.0,0.20796944200992584,1.615683913230896,0.5691956281661987,0.17872926485538482
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- 2017-18,0.11,0.597,102.9,False,0.2806945741176605,0.6855401992797852,0.6795654892921448,0.9165520071983337,0.4401439021229744
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- 2018-19,0.52,0.42,63.6,False,0.26834338903427124,0.8694409728050232,0.663491427898407,1.0503103733062744,0.5047037708759308
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- 2019-20,0.531,0.041,66.0,False,0.21791546046733856,0.9903162717819214,0.597863495349884,1.1382278203964233,0.15631607665121555
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- 2021-22,0.005,0.986,17.5,False,0.24649789929389954,0.7569807767868042,0.6350612640380859,1.1520466804504395,0.7476155354082584
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- 2022-23,0.289,0.654,62.4,False,0.39531269669532776,0.29457464814186096,0.8287317752838135,0.7036079168319702,0.3068971892297268
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- 2023-24,0.479,0.27,83.5,False,0.08234912157058716,0.5973201394081116,0.42143476009368896,0.9972087740898132,0.2007216668725014
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- 2024-25,0.496,0.437,126.2,False,0.18352560698986053,0.6847919821739197,0.5531078577041626,1.082038402557373,0.3902827972769737
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- 2025-26,0.111,0.808,78.2,False,0.381717711687088,0.7308477163314819,0.8110390305519104,1.1267030239105225,0.6328956207931042
 
1
  season,pct_h1n1,pct_h3n2,hosp_rate_overall,covid_excluded,drift_h1n1,drift_h3n2,drift_h1n1_raw,drift_h3n2_raw,drift_blended
2
+ 2010-11,,,21.5,False,0.5,0.5,0.7833125591278076,0.8496021032333374,0.0
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+ 2011-12,,,8.7,False,0.0,0.0,0.624801754951477,0.6389384865760803,0.0
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+ 2012-13,,,44.0,False,0.0,1.0,0.3142797648906708,1.1452760696411133,0.0
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+ 2013-14,,,35.1,False,1.0,0.9233307838439941,0.7889097332954407,1.1064555644989014,0.0
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+ 2014-15,,,64.1,False,1.0,0.36243173480033875,1.599363923072815,0.8224512934684753,0.0
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+ 2015-16,0.545,0.154,31.4,False,0.24735122919082642,0.0,0.6321468949317932,0.417932391166687,0.1348064199090004
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+ 2016-17,0.024,0.744,62.0,False,1.0,0.2079765796661377,1.615738868713379,0.5692028403282166,0.17873457527160644
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+ 2017-18,0.11,0.597,102.9,False,0.28068017959594727,0.6855225563049316,0.6795735359191895,0.9165428876876831,0.44013178586959834
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+ 2018-19,0.52,0.42,63.6,False,0.2683354616165161,0.8694519400596619,0.6635074019432068,1.0503227710723877,0.5047042548656463
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+ 2019-20,0.531,0.041,66.0,False,0.21788427233695984,0.9902693033218384,0.5978472232818604,1.1381984949111938,0.15629759004712107
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+ 2021-22,0.005,0.986,17.5,False,0.24649177491664886,0.7569116950035095,0.6350787281990051,1.1520018577575684,0.7475473901480436
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+ 2022-23,0.289,0.654,62.4,False,0.3952478766441345,0.2945549488067627,0.8286787271499634,0.7035982012748718,0.30686557286977767
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+ 2023-24,0.479,0.27,83.5,False,0.08233048021793365,0.597309947013855,0.42142951488494873,0.9972165822982788,0.20070998571813106
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+ 2024-25,0.496,0.437,126.2,False,0.18349719047546387,0.6847602128982544,0.5530938506126404,1.082027792930603,0.3902548195123673
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+ 2025-26,0.111,0.808,78.2,False,0.3817109167575836,0.7308130860328674,0.811060905456543,1.1266908645629883,0.6328668852746486
results_new/drift_merged_tvae.csv ADDED
@@ -0,0 +1,16 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ season,pct_h1n1,pct_h3n2,hosp_rate_overall,covid_excluded,drift_h1n1,drift_h3n2,drift_h1n1_raw,drift_h3n2_raw,drift_blended
2
+ 2010-11,,,21.5,False,0.0,0.0,0.047249358147382736,0.00031050987308844924,0.0
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+ 2012-13,,,44.0,False,1.0,0.25357720255851746,0.1884067952632904,0.000156549402163364,0.0
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+ 2013-14,,,35.1,False,0.9789671897888184,0.0,0.18528012931346893,8.026814612094313e-05,0.0
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+ 2022-23,0.289,0.654,62.4,False,0.22555497288703918,0.03176469728350639,0.06373889744281769,6.019797729095444e-05,0.0859594991877675
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+ 2023-24,0.479,0.27,83.5,False,0.09869491308927536,0.23067045211791992,0.028606507927179337,0.0001770202215993777,0.10955588544160128
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+ 2025-26,0.111,0.808,78.2,False,0.03214199095964432,0.3220685124397278,0.01017546933144331,0.00023070054885465652,0.26379911904782055
results_new/drift_merged_tvae_lag2.csv ADDED
@@ -0,0 +1,16 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ season,pct_h1n1,pct_h3n2,hosp_rate_overall,covid_excluded,drift_h1n1,drift_h3n2,drift_h1n1_raw,drift_h3n2_raw,drift_blended
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+ 2010-11,,,21.5,False,0.5,0.5,0.02840210683643818,0.00015037148841656744,0.0
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+ 2012-13,,,44.0,False,1.0,0.21943239867687225,0.14890426397323608,0.00018724641995504498,0.0
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+ 2013-14,,,35.1,False,0.0,0.12704823911190033,0.005594941321760416,0.0001717215491225943,0.0
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+ 2014-15,,,64.1,False,0.6984757781028748,0.0,0.1056930273771286,0.00011626751802396029,0.0
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+ 2015-16,0.545,0.154,31.4,False,0.000617196608800441,0.0,0.0056833913549780846,6.418878911063075e-05,0.0003363721517962404
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+ 2016-17,0.024,0.744,62.0,False,1.0,0.9740080833435059,0.28498831391334534,0.00031181046506389976,0.7486620140075684
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+ 2017-18,0.11,0.597,102.9,False,0.0051592811942100525,1.0,0.0070364102721214294,0.0008550261845812201,0.5975675209313631
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+ 2018-19,0.52,0.42,63.6,False,0.13075275719165802,0.0986025407910347,0.04212639480829239,0.0001421673659933731,0.10940450087189674
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+ 2021-22,0.005,0.986,17.5,False,0.14069309830665588,0.6247300505638123,0.04490366205573082,0.0006505204946734011,0.6166872953474523
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results_new/drift_merged_vae.csv CHANGED
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1
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1
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results_new/drift_merged_vae_lag2.csv CHANGED
@@ -1,16 +1,16 @@
1
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1
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results_new/drift_scores_diffae_h1n1.csv CHANGED
@@ -1,18 +1,18 @@
1
  season,drift_raw,n_sequences,drift_norm,subtype
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1
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@@ -1,17 +1,17 @@
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1
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results_new/drift_scores_diffae_h3n2.csv CHANGED
@@ -1,18 +1,18 @@
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1
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2
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results_new/drift_scores_diffae_h3n2_lag2.csv CHANGED
@@ -1,17 +1,17 @@
1
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10
- 2018-19,1.0503104,3758,0.8694409728050232,H3N2
11
- 2019-20,1.1382278,929,0.9903162717819214,H3N2
12
- 2020-21,1.3877254,82,1.0,H3N2
13
- 2021-22,1.1520467,5129,0.7569807767868042,H3N2
14
- 2022-23,0.7036079,3827,0.29457464814186096,H3N2
15
- 2023-24,0.9972088,5038,0.5973201394081116,H3N2
16
- 2024-25,1.0820384,6957,0.6847919821739197,H3N2
17
- 2025-26,1.126703,520,0.7308477163314819,H3N2
 
1
  season,drift_raw,n_sequences,drift_norm,subtype
2
+ 2010-11,0.8496021,143,0.5,H3N2
3
+ 2011-12,0.6389385,73,0.0,H3N2
4
+ 2012-13,1.1452761,1091,1.0,H3N2
5
+ 2013-14,1.1064556,86,0.9233307838439941,H3N2
6
+ 2014-15,0.8224513,1432,0.36243173480033875,H3N2
7
+ 2015-16,0.4179324,1238,0.0,H3N2
8
+ 2016-17,0.56920284,2591,0.2079765796661377,H3N2
9
+ 2017-18,0.9165429,2414,0.6855225563049316,H3N2
10
+ 2018-19,1.0503228,3758,0.8694519400596619,H3N2
11
+ 2019-20,1.1381985,929,0.9902693033218384,H3N2
12
+ 2020-21,1.3877542,82,1.0,H3N2
13
+ 2021-22,1.1520019,5129,0.7569116950035095,H3N2
14
+ 2022-23,0.7035982,3827,0.2945549488067627,H3N2
15
+ 2023-24,0.9972166,5038,0.597309947013855,H3N2
16
+ 2024-25,1.0820278,6957,0.6847602128982544,H3N2
17
+ 2025-26,1.1266909,520,0.7308130860328674,H3N2
results_new/drift_scores_tvae_h1n1.csv ADDED
@@ -0,0 +1,18 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ season,drift_raw,n_sequences,drift_norm
2
+ 2009-10,0.07554422,646,0.5
3
+ 2010-11,0.04724936,134,0.0
4
+ 2011-12,0.039750215,42,0.0
5
+ 2012-13,0.1884068,34,1.0
6
+ 2013-14,0.18528013,112,0.9789671897888184
7
+ 2014-15,0.27316684,140,1.0
8
+ 2015-16,0.27821225,1524,1.0
9
+ 2016-17,0.0075523993,548,0.0
10
+ 2017-18,0.0012741262,1146,0.0
11
+ 2018-19,0.04142546,2432,0.14498305320739746
12
+ 2019-20,0.018880503,2032,0.0635751336812973
13
+ 2020-21,0.030591847,12,0.10586380213499069
14
+ 2021-22,0.07248232,105,0.25712674856185913
15
+ 2022-23,0.0637389,2158,0.22555497288703918
16
+ 2023-24,0.028606508,6766,0.09869491308927536
17
+ 2024-25,0.030555062,6155,0.10573097318410873
18
+ 2025-26,0.010175469,89,0.03214199095964432
results_new/drift_scores_tvae_h1n1_lag2.csv ADDED
@@ -0,0 +1,17 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ season,drift_raw,n_sequences,drift_norm
2
+ 2010-11,0.028402107,134,0.5
3
+ 2011-12,0.008423984,42,0.0
4
+ 2012-13,0.14890426,34,1.0
5
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6
+ 2014-15,0.10569303,140,0.6984757781028748
7
+ 2015-16,0.0056833914,1524,0.000617196608800441
8
+ 2016-17,0.2849883,548,1.0
9
+ 2017-18,0.0070364103,1146,0.0051592811942100525
10
+ 2018-19,0.042126395,2432,0.13075275719165802
11
+ 2019-20,0.027318614,2032,0.07775299996137619
12
+ 2020-21,0.045163028,12,0.1416214108467102
13
+ 2021-22,0.044903662,105,0.14069309830665588
14
+ 2022-23,0.009380561,2158,0.013549426570534706
15
+ 2023-24,0.035369888,6766,0.10656998306512833
16
+ 2024-25,0.0039695385,6155,0.0
17
+ 2025-26,0.020594051,89,0.05915801599621773
results_new/drift_scores_tvae_h3n2.csv ADDED
@@ -0,0 +1,18 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ season,drift_raw,n_sequences,drift_norm
2
+ 2009-10,0.0003535328,7,0.5
3
+ 2010-11,0.00031050987,143,0.0
4
+ 2011-12,8.962955e-05,73,0.0
5
+ 2012-13,0.0001565494,1091,0.25357720255851746
6
+ 2013-14,8.0268146e-05,86,0.0
7
+ 2014-15,5.8827474e-05,1432,0.0
8
+ 2015-16,4.154179e-05,1238,0.0
9
+ 2016-17,0.00029333998,2591,0.8070687055587769
10
+ 2017-18,0.00061776827,2414,1.0
11
+ 2018-19,0.00062886643,3758,1.0
12
+ 2019-20,0.0004390681,929,0.6768425703048706
13
+ 2020-21,0.0006096716,82,0.9673182368278503
14
+ 2021-22,5.0025777e-05,5129,0.01444514375180006
15
+ 2022-23,6.0197977e-05,3827,0.03176469728350639
16
+ 2023-24,0.00017702022,5038,0.23067045211791992
17
+ 2024-25,0.00010770135,6957,0.11264564841985703
18
+ 2025-26,0.00023070055,520,0.3220685124397278
results_new/drift_scores_tvae_h3n2_lag2.csv ADDED
@@ -0,0 +1,17 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ season,drift_raw,n_sequences,drift_norm
2
+ 2010-11,0.00015037149,143,0.5
3
+ 2011-12,0.00031841837,73,1.0
4
+ 2012-13,0.00018724642,1091,0.21943239867687225
5
+ 2013-14,0.00017172155,86,0.12704823911190033
6
+ 2014-15,0.00011626752,1432,0.0
7
+ 2015-16,6.418879e-05,1238,0.0
8
+ 2016-17,0.00031181047,2591,0.9740080833435059
9
+ 2017-18,0.0008550262,2414,1.0
10
+ 2018-19,0.00014216737,3758,0.0986025407910347
11
+ 2019-20,0.0003588167,929,0.372551828622818
12
+ 2020-21,0.0010027249,82,1.0
13
+ 2021-22,0.0006505205,5129,0.6247300505638123
14
+ 2022-23,8.6859385e-05,3827,0.024155274033546448
15
+ 2023-24,0.00016098697,5038,0.10313740372657776
16
+ 2024-25,0.00020776421,6957,0.1529780626296997
17
+ 2025-26,0.00019532538,520,0.13972461223602295
results_new/drift_scores_vae_h1n1.csv CHANGED
@@ -1,18 +1,18 @@
1
  season,drift_raw,n_sequences,drift_norm,subtype
2
- 2009-10,1.450825,646,0.5,H1N1
3
- 2010-11,0.4765356,134,0.0,H1N1
4
- 2011-12,1.2336639,42,0.7771082520484924,H1N1
5
- 2012-13,1.3156829,34,0.8612916469573975,H1N1
6
- 2013-14,0.8869691,112,0.4212644696235657,H1N1
7
- 2014-15,3.229831,140,1.0,H1N1
8
- 2015-16,3.2830172,1524,1.0,H1N1
9
- 2016-17,0.47321114,548,0.0,H1N1
10
- 2017-18,0.8554824,1146,0.13604898750782013,H1N1
11
- 2018-19,0.55094564,2432,0.027665432542562485,H1N1
12
- 2019-20,1.0523629,2032,0.20611804723739624,H1N1
13
- 2020-21,1.0806491,12,0.21618501842021942,H1N1
14
- 2021-22,1.5635442,105,0.38804563879966736,H1N1
15
- 2022-23,0.7888527,2158,0.112335704267025,H1N1
16
- 2023-24,0.48950127,6766,0.005797598510980606,H1N1
17
- 2024-25,0.92285734,6155,0.16002748906612396,H1N1
18
- 2025-26,0.9353826,89,0.16448518633842468,H1N1
 
1
  season,drift_raw,n_sequences,drift_norm,subtype
2
+ 2009-10,1.450889,646,0.5,H1N1
3
+ 2010-11,0.47648925,134,0.0,H1N1
4
+ 2011-12,1.2336004,42,0.7770025730133057,H1N1
5
+ 2012-13,1.3157514,34,0.8613119721412659,H1N1
6
+ 2013-14,0.8870982,112,0.42139682173728943,H1N1
7
+ 2014-15,3.229958,140,1.0,H1N1
8
+ 2015-16,3.2831442,1524,1.0,H1N1
9
+ 2016-17,0.4732456,548,0.0,H1N1
10
+ 2017-18,0.85536057,1146,0.13598889112472534,H1N1
11
+ 2018-19,0.5509908,2432,0.027668340131640434,H1N1
12
+ 2019-20,1.0523428,2032,0.20609183609485626,H1N1
13
+ 2020-21,1.0803982,12,0.2160763293504715,H1N1
14
+ 2021-22,1.5634476,105,0.3879862427711487,H1N1
15
+ 2022-23,0.7888692,2158,0.11232562363147736,H1N1
16
+ 2023-24,0.4895367,6766,0.005797757767140865,H1N1
17
+ 2024-25,0.92283857,6155,0.16000327467918396,H1N1
18
+ 2025-26,0.9356745,89,0.1645713746547699,H1N1
results_new/drift_scores_vae_h1n1_lag2.csv CHANGED
@@ -1,17 +1,17 @@
1
  season,drift_raw,n_sequences,drift_norm,subtype
2
- 2010-11,1.6838396,134,0.5,H1N1
3
- 2011-12,1.39849,42,0.0,H1N1
4
- 2012-13,0.6571969,34,0.0,H1N1
5
- 2013-14,1.6866796,112,1.0,H1N1
6
- 2014-15,3.2755883,140,1.0,H1N1
7
- 2015-16,1.743154,1524,0.4147420823574066,H1N1
8
- 2016-17,3.353778,548,1.0,H1N1
9
- 2017-18,1.0407152,1146,0.14222393929958344,H1N1
10
- 2018-19,0.9158264,2432,0.09591016173362732,H1N1
11
- 2019-20,1.3699503,2032,0.26431745290756226,H1N1
12
- 2020-21,1.6949286,12,0.3848324120044708,H1N1
13
- 2021-22,1.8264376,105,0.4336012005805969,H1N1
14
- 2022-23,2.1974437,2158,0.5711851119995117,H1N1
15
- 2023-24,0.7683378,6766,0.04121549054980278,H1N1
16
- 2024-25,0.9557891,6155,0.11072992533445358,H1N1
17
- 2025-26,1.4632589,89,0.29892000555992126,H1N1
 
1
  season,drift_raw,n_sequences,drift_norm,subtype
2
+ 2010-11,1.6838981,134,0.5,H1N1
3
+ 2011-12,1.3985307,42,0.0,H1N1
4
+ 2012-13,0.65720874,34,0.0,H1N1
5
+ 2013-14,1.6867096,112,1.0,H1N1
6
+ 2014-15,3.2757616,140,1.0,H1N1
7
+ 2015-16,1.7431369,1524,0.41470545530319214,H1N1
8
+ 2016-17,3.3538356,548,1.0,H1N1
9
+ 2017-18,1.0407438,1146,0.14222770929336548,H1N1
10
+ 2018-19,0.915748,2432,0.09587505459785461,H1N1
11
+ 2019-20,1.3699938,2032,0.26432469487190247,H1N1
12
+ 2020-21,1.694671,12,0.3847258985042572,H1N1
13
+ 2021-22,1.826467,105,0.4336003363132477,H1N1
14
+ 2022-23,2.197362,2158,0.5711406469345093,H1N1
15
+ 2023-24,0.7682978,6766,0.04119555652141571,H1N1
16
+ 2024-25,0.9557269,6155,0.1107005849480629,H1N1
17
+ 2025-26,1.4635142,89,0.2990052103996277,H1N1
results_new/drift_scores_vae_h3n2.csv CHANGED
@@ -1,18 +1,18 @@
1
  season,drift_raw,n_sequences,drift_norm,subtype
2
- 2009-10,1.4048959,7,0.5,H3N2
3
- 2010-11,1.8256954,143,1.0,H3N2
4
- 2011-12,0.69628763,73,0.0,H3N2
5
- 2012-13,1.591805,1091,0.792908787727356,H3N2
6
- 2013-14,0.6546976,86,0.0,H3N2
7
- 2014-15,0.66254073,1432,0.006697823293507099,H3N2
8
- 2015-16,0.89745927,1238,0.20731179416179657,H3N2
9
- 2016-17,0.8643776,2591,0.17906098067760468,H3N2
10
- 2017-18,1.2708418,2414,0.5261702537536621,H3N2
11
- 2018-19,2.7669466,3758,1.0,H3N2
12
- 2019-20,2.5847838,929,0.9137588739395142,H3N2
13
- 2020-21,2.1798487,82,0.7220507860183716,H3N2
14
- 2021-22,0.44398916,5129,0.0,H3N2
15
- 2022-23,1.6075354,3827,0.5008900165557861,H3N2
16
- 2023-24,2.3582237,5038,0.8240506052970886,H3N2
17
- 2024-25,0.5509789,6957,0.046057555824518204,H3N2
18
- 2025-26,2.224057,520,0.7662937641143799,H3N2
 
1
  season,drift_raw,n_sequences,drift_norm,subtype
2
+ 2009-10,1.4049134,7,0.5,H3N2
3
+ 2010-11,1.8258564,143,1.0,H3N2
4
+ 2011-12,0.696247,73,0.0,H3N2
5
+ 2012-13,1.5919019,1091,0.7928889989852905,H3N2
6
+ 2013-14,0.6545788,86,0.0,H3N2
7
+ 2014-15,0.6625349,1432,0.0067926570773124695,H3N2
8
+ 2015-16,0.89752394,1238,0.20741891860961914,H3N2
9
+ 2016-17,0.86438394,2591,0.17912502586841583,H3N2
10
+ 2017-18,1.2707258,2414,0.5260469317436218,H3N2
11
+ 2018-19,2.7668264,3758,1.0,H3N2
12
+ 2019-20,2.584583,929,0.9137207269668579,H3N2
13
+ 2020-21,2.179456,82,0.7219216823577881,H3N2
14
+ 2021-22,0.44372347,5129,0.0,H3N2
15
+ 2022-23,1.6073804,3827,0.5009063482284546,H3N2
16
+ 2023-24,2.3581033,5038,0.8240615725517273,H3N2
17
+ 2024-25,0.55099255,6957,0.04617491364479065,H3N2
18
+ 2025-26,2.223808,520,0.7662529945373535,H3N2
results_new/drift_scores_vae_h3n2_lag2.csv CHANGED
@@ -1,17 +1,17 @@
1
  season,drift_raw,n_sequences,drift_norm,subtype
2
- 2010-11,1.9789417,143,0.5,H3N2
3
- 2011-12,1.7089305,73,0.0,H3N2
4
- 2012-13,1.8436354,1091,0.4988865554332733,H3N2
5
- 2013-14,1.8113375,86,0.37926939129829407,H3N2
6
- 2014-15,1.0838729,1432,0.0,H3N2
7
- 2015-16,0.71728826,1238,0.0,H3N2
8
- 2016-17,1.122984,2591,0.3215588331222534,H3N2
9
- 2017-18,1.4978067,2414,0.6186472177505493,H3N2
10
- 2018-19,2.3151267,3758,1.0,H3N2
11
- 2019-20,2.1846278,929,0.9183278679847717,H3N2
12
- 2020-21,2.7900617,82,1.0,H3N2
13
- 2021-22,2.4172654,5129,0.8201461434364319,H3N2
14
- 2022-23,1.4695538,3827,0.36292704939842224,H3N2
15
- 2023-24,2.3646626,5038,0.7947681546211243,H3N2
16
- 2024-25,2.4013884,6957,0.8124863505363464,H3N2
17
- 2025-26,2.3938072,520,0.8088288307189941,H3N2
 
1
  season,drift_raw,n_sequences,drift_norm,subtype
2
+ 2010-11,1.9789968,143,0.5,H3N2
3
+ 2011-12,1.709227,73,0.0,H3N2
4
+ 2012-13,1.8436772,1091,0.4983886480331421,H3N2
5
+ 2013-14,1.8113673,86,0.3786202669143677,H3N2
6
+ 2014-15,1.0837392,1432,0.0,H3N2
7
+ 2015-16,0.7172883,1238,0.0,H3N2
8
+ 2016-17,1.1230145,2591,0.3215688467025757,H3N2
9
+ 2017-18,1.4976808,2414,0.6185204386711121,H3N2
10
+ 2018-19,2.3151217,3758,1.0,H3N2
11
+ 2019-20,2.1844294,929,0.9182065725326538,H3N2
12
+ 2020-21,2.78988,82,1.0,H3N2
13
+ 2021-22,2.4169571,5129,0.8200693130493164,H3N2
14
+ 2022-23,1.4693893,3827,0.3628794550895691,H3N2
15
+ 2023-24,2.3643763,5038,0.7946996688842773,H3N2
16
+ 2024-25,2.4012733,6957,0.8125020265579224,H3N2
17
+ 2025-26,2.3937602,520,0.8088770508766174,H3N2
results_new/full_model_comparison.csv CHANGED
@@ -1,13 +1,16 @@
1
  Model,Split,RMSE,MAE,r,rho
2
- DiffAE lag-1,Calib,22.324213840990897,18.376961803436277,0.6143446226711793,0.4637130167514838
3
- DiffAE lag-1,Valid,13.815539711619138,11.275369262695312,0.8629234872587804,0.19999999999999998
4
- DiffAE lag-1,All,19.49617295100787,15.645580056997444,0.7065065748221085,0.47476573641351993
5
- VAE lag-1,Calib,20.994772065537852,17.29335889816284,0.7985789477306864,0.5182674893104819
6
- VAE lag-1,Valid,13.73814430302318,10.965842285156251,0.9443176534160846,0.3
7
- VAE lag-1,All,18.542937028015956,14.859698662391073,0.8191369382009438,0.6782367663050285
8
- DiffAE lag-2,Calib,16.686148907477406,13.502629184722899,0.7987269916538151,0.5182674893104819
9
- DiffAE lag-2,Valid,137.20136128205786,84.00085998535155,-0.9313381344843926,-0.7999999999999999
10
- DiffAE lag-2,All,86.08961708643137,40.617333338810845,-0.1297512673642032,0.33911838315251425
11
- DiffAE combined,Calib,22.680264651175186,18.51344871520996,0.5784229798821824,0.4364357804719847
12
- DiffAE combined,Valid,27.531314148485635,22.103874969482423,-0.39412733063200855,-0.6
13
- DiffAE combined,All,24.659249366097285,19.894381889930138,0.43911105663604255,0.31085851788980473
 
 
 
 
1
  Model,Split,RMSE,MAE,r,rho
2
+ DiffAE lag-1,Calib,22.323976096464357,18.37691602706909,0.6143652101381859,0.4637130167514838
3
+ DiffAE lag-1,Valid,13.815013664970625,11.274404907226563,0.8629677995938464,0.19999999999999998
4
+ DiffAE lag-1,All,19.495862051808132,15.64518098097581,0.7065316795356926,0.47476573641351993
5
+ VAE lag-1,Calib,20.994241940491616,17.291990375518797,0.7985955756353638,0.5182674893104819
6
+ VAE lag-1,Valid,13.73875935241444,10.966592254638673,0.944342027010121,0.3
7
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results_new/latent_diversity_diffae_h3n2.csv CHANGED
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- 2025-26,0.2879503,0.28932673,0.1669463867971957,520
 
1
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2
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results_new/latent_diversity_tvae_h3n2.csv ADDED
@@ -0,0 +1,19 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ season,latent_spread,latent_spread_std,latent_var_trace,n_sequences
2
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results_new/latent_diversity_vae_h3n2.csv CHANGED
@@ -1,19 +1,19 @@
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1
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2
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results_new/sirc_params_diffae.csv CHANGED
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1
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results_new/sirc_params_diffae_combined.csv CHANGED
@@ -1,8 +1,8 @@
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- beta,0.5424919128417969
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1
  ,0
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results_new/sirc_params_diffae_lag2.csv CHANGED
@@ -1,8 +1,8 @@
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- beta,0.5816042423248291
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1
  ,0
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results_new/sirc_params_tvae.csv ADDED
@@ -0,0 +1,11 @@
 
 
 
 
 
 
 
 
 
 
 
 
1
+ ,0
2
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results_new/sirc_params_vae.csv CHANGED
@@ -1,11 +1,11 @@
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- beta,0.4929124116897583
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1
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results_new/sirc_simulation_diffae.csv CHANGED
@@ -1,14 +1,14 @@
1
  season,drift_blended,hosp_obs,hosp_sim,delta_used,S0_used
2
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1
  season,drift_blended,hosp_obs,hosp_sim,delta_used,S0_used
2
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results_new/sirc_simulation_diffae_combined.csv CHANGED
@@ -1,14 +1,14 @@
1
  season,drift_combined,hosp_obs,hosp_sim
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- 2023-24,0.22001605245471,83.5,61.111988
 
1
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results_new/sirc_simulation_diffae_lag2.csv CHANGED
@@ -1,14 +1,14 @@
1
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- 2023-24,0.2007216668725014,83.5,51.94764
 
1
  season,drift_blended,hosp_obs,hosp_sim
2
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+ 2013-14,0.0,35.1,33.423187
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+ 2014-15,0.0,64.1,33.423187
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+ 2015-16,0.1348064199090004,31.4,48.566177
8
+ 2016-17,0.17873457527160644,62.0,50.884277
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+ 2017-18,0.44013178586959834,102.9,103.06196
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+ 2018-19,0.5047042548656463,63.6,139.76414
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+ 2019-20,0.15629759004712107,66.0,49.77174
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+ 2021-22,0.7475473901480436,17.5,312.5275
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+ 2022-23,0.30686557286977767,62.4,61.38915
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+ 2023-24,0.20070998571813106,83.5,51.947235
results_new/sirc_simulation_tvae.csv ADDED
@@ -0,0 +1,14 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ season,drift_blended,hosp_obs,hosp_sim
2
+ 2010-11,0.0,21.5,34.680023
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+ 2011-12,0.0,8.7,34.680023
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+ 2015-16,0.545,31.4,0.0
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+ 2016-17,0.60045911693573,62.0,0.0
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+ 2017-18,0.597,102.9,0.0
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+ 2019-20,0.06150894136726856,66.0,25.820732
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+ 2021-22,0.015528545482084155,17.5,34.697548
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+ 2022-23,0.0859594991877675,62.4,18.14492
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+ 2023-24,0.10955588544160128,83.5,9.665564
results_new/sirc_simulation_vae.csv CHANGED
@@ -1,14 +1,14 @@
1
  season,drift_blended,hosp_obs,hosp_sim
2
- 2010-11,0.0,21.5,40.21561
3
- 2011-12,0.0,8.7,40.21561
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- 2012-13,0.0,44.0,40.21561
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- 2013-14,0.0,35.1,40.21561
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- 2014-15,0.0,64.1,40.21561
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- 2015-16,0.5769260163009167,31.4,45.554726
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- 2016-17,0.1332213696241379,62.0,57.593063
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- 2017-18,0.32908903011679647,102.9,66.1304
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- 2018-19,0.43438602492213246,63.6,59.98023
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- 2019-20,0.14691279691457748,66.0,59.000103
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- 2021-22,0.001940228193998337,17.5,40.492638
13
- 2022-23,0.3600470893606544,62.4,65.0134
14
- 2023-24,0.22527071311697366,83.5,64.89649
 
1
  season,drift_blended,hosp_obs,hosp_sim
2
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+ 2018-19,0.434387536868453,63.6,59.976116
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+ 2019-20,0.14689731477200985,66.0,58.99845
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+ 2021-22,0.0019399312138557434,17.5,40.493042
13
+ 2022-23,0.3600548569709063,62.4,65.01018
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+ 2023-24,0.22527375055942686,83.5,64.89569