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b8aa761
Merge pull request #7 from agb85/Develop
agb85 Nov 21, 2020
7b835be
Create index.md
agb85 Nov 21, 2020
df10d6c
Merge pull request #8 from agb85/Develop
agb85 Nov 21, 2020
69b377b
publish documentation
agb85 Nov 21, 2020
230796f
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Nov 21, 2020
7f111e0
Publish Regional Model Documentation
agb85 Nov 23, 2020
641215c
Update index.md
agb85 Nov 24, 2020
2d71282
Update index.md
agb85 Nov 24, 2020
907c591
update docs on webpage
agb85 Nov 24, 2020
aa7b867
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Nov 24, 2020
13d14ed
Regional Report Update 11/24
agb85 Nov 25, 2020
bb2166c
Update index.md
agb85 Nov 25, 2020
c9acd0b
Update index.md
agb85 Nov 25, 2020
e5ca29e
Update index.md
agb85 Nov 25, 2020
2af9b7c
Model update 12/1
agb85 Dec 1, 2020
2432bbd
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Dec 1, 2020
d9ccbe8
update regional reports
agb85 Dec 2, 2020
b26089b
Update index.md
agb85 Dec 2, 2020
cbf65e6
html regional model
agb85 Dec 11, 2020
c31dbad
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Dec 11, 2020
842cc09
Update index.md
agb85 Dec 11, 2020
2bcb954
add metro LPHA report to website
agb85 Dec 11, 2020
bb732ad
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Dec 11, 2020
82a4337
Update index.md
agb85 Dec 11, 2020
3ac007a
Update index.md
agb85 Dec 11, 2020
66abe35
regional report archive
agb85 Dec 11, 2020
da8fc50
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Dec 11, 2020
1b0cfaa
Update index.md
agb85 Dec 11, 2020
69913db
Update index.md
agb85 Dec 11, 2020
2138a59
weekly report 12/16
imkas1 Dec 16, 2020
dbfae50
Update index.md
agb85 Dec 17, 2020
a293ac8
Weekly reports by county and region 12/17
imkas1 Dec 18, 2020
7791dee
Merge branch 'master' of https://github.com/agb85/covid-19
imkas1 Dec 18, 2020
95e24b2
Update index.md
imkas1 Dec 18, 2020
b976807
model and documentation updates 12/23
agb85 Dec 23, 2020
40a30ad
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Dec 23, 2020
bafcf1e
Update index.md
agb85 Dec 23, 2020
3f5ffd5
Update index.md
agb85 Dec 23, 2020
48f8ea1
12/23 report
imkas1 Dec 23, 2020
9f76bdd
Merge branch 'master' of https://github.com/agb85/covid-19
imkas1 Dec 23, 2020
5dac49f
Update index.md
imkas1 Dec 23, 2020
4e2af0c
Regional Report Updates 01/13/2021
imkas1 Jan 13, 2021
9f005d8
Update index.md
imkas1 Jan 14, 2021
80a62d8
Model updates 01/14
agb85 Jan 14, 2021
6da54a5
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Jan 14, 2021
633bab0
regional report updates 1/20/2021
imkas1 Jan 21, 2021
7470dce
Update index.md
imkas1 Jan 21, 2021
18c2e79
regional model 1/27/2021
imkas1 Jan 28, 2021
dd64f55
Update index.md
imkas1 Jan 28, 2021
45ff45d
model updated 01/28
agb85 Jan 28, 2021
6c69613
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Jan 28, 2021
6b90e59
Update index.md
agb85 Jan 28, 2021
8450e13
jan 18 2021 archive documentation add
agb85 Jan 28, 2021
6a32376
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Jan 28, 2021
e17e87b
regional model 2/3/2021
imkas1 Feb 4, 2021
67ddb00
Update index.md
imkas1 Feb 4, 2021
966fb1a
regional report updates 2/10/2021
imkas1 Feb 11, 2021
951ad77
Update index.md
imkas1 Feb 11, 2021
353d446
regional report updates 02/17/2021
imkas1 Feb 18, 2021
fbdbc1e
Update index.md
imkas1 Feb 18, 2021
7fb23a5
Added updated vaccination scenarios
agb85 Feb 18, 2021
fc3e293
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Feb 18, 2021
bf692f9
Update index.md
agb85 Feb 19, 2021
fd9db83
update documentation
agb85 Feb 19, 2021
637b943
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Feb 19, 2021
06c596e
Make regional model code public
agb85 Feb 19, 2021
3d548cd
Add files via upload
imkas1 Feb 20, 2021
c695c47
regional report updates 2/26/2021
imkas1 Feb 26, 2021
f639fc7
Update index.md
imkas1 Feb 26, 2021
4dca49f
regional report updates 03/03/2021
imkas1 Mar 4, 2021
4a1af97
Update index.md
imkas1 Mar 4, 2021
4aa8d33
model update - remove excess params and compartments
agb85 Mar 4, 2021
e4d0001
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Mar 4, 2021
b467ca0
regional model params week of 3/1/20212
imkas1 Mar 7, 2021
800a392
Merge branch 'master' of https://github.com/agb85/covid-19
imkas1 Mar 7, 2021
418a390
image files for website
imkas1 Mar 7, 2021
62e2f02
regional model report updates 3/10/2021
imkas1 Mar 11, 2021
253f9d5
Update index.md
imkas1 Mar 11, 2021
8d18472
Update hospitalization rates and weekly updates
agb85 Mar 11, 2021
ad155d4
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Mar 11, 2021
bfe03e3
update documentation
agb85 Mar 12, 2021
2a5b831
Update ability to project variant increases, add spreadsheets for mod…
agb85 Mar 19, 2021
d5ba689
regional model updates 3/18/2021
imkas1 Mar 19, 2021
3273b9a
Update index.md
imkas1 Mar 19, 2021
40f0c79
regional report updates part 2 3/18/2021
imkas1 Mar 19, 2021
bf32e16
Merge branch 'master' of https://github.com/agb85/covid-19
imkas1 Mar 19, 2021
a5ebd7a
Delete Regional Report.html
imkas1 Mar 19, 2021
f71f1f6
Delete Regional Report_20210317.html
imkas1 Mar 19, 2021
93e7dd3
regional model updates 3
imkas1 Mar 19, 2021
c232e57
Add files via upload
sabatroid Mar 22, 2021
206ee9f
regional report updated 3/31/2021
imkas1 Apr 1, 2021
a0b515a
Update index.md
imkas1 Apr 1, 2021
289c92f
Regional Mobility Model Supplement Documentation
agb85 Apr 13, 2021
63e200c
Update index.md
agb85 Apr 13, 2021
08f49e0
regional report updates 4/14/2021
imkas1 Apr 15, 2021
78675dd
Update index.md
imkas1 Apr 15, 2021
e056520
Model updates to include daily vaccination rates and two variants inc…
agb85 Apr 21, 2021
0bf7684
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 Apr 21, 2021
ddc6c02
move old versions of model
agb85 Apr 21, 2021
3ce138a
regional report updates 4/28/2021
imkas1 Apr 29, 2021
83f35fc
Update index.md
imkas1 Apr 29, 2021
b930e4e
regional report updates 5/5/2021
imkas1 May 5, 2021
156c2de
Update index.md
imkas1 May 5, 2021
cb89d9d
fix vdnh to vdh
agb85 May 6, 2021
5caa9ee
Regional report updates 5/12/2021
imkas1 May 13, 2021
4aa462d
regional report updates, part 2 5/12/2021
imkas1 May 13, 2021
3929682
Update index.md
imkas1 May 13, 2021
433079f
Model documentation update
agb85 May 14, 2021
4067f28
Update index.md
agb85 May 14, 2021
6bb5fe3
update main documentation
agb85 May 14, 2021
3fcc7a1
Merge branch 'master' of https://github.com/agb85/covid-19 into master
agb85 May 14, 2021
1407185
Updated to 05/10/2021 dataset
sabatroid May 20, 2021
fcfe851
Updated to 05/08/2021 data
sabatroid May 20, 2021
a2d0a2e
Delete vaccMatrices.mat
sabatroid May 20, 2021
1493ae1
Updated to 05/04/2021 data
sabatroid May 20, 2021
344a8e8
Updated version includes daily vaccinations rates by age by region
sabatroid May 20, 2021
9a24afe
regional report updates 6/9/2021
imkas1 Jun 9, 2021
9612765
regional model updates 6/9/2021, part 2
imkas1 Jun 9, 2021
8dd8f14
Update index.md
imkas1 Jun 9, 2021
8f1a550
Regional Report Updates 6/21/2021
imkas1 Jun 22, 2021
4fac9b7
Update index.md
imkas1 Jun 22, 2021
b7c1a54
updated summary table and map
imkas1 Jun 24, 2021
b765d6d
regional report updates 6/30/2021
imkas1 Jul 1, 2021
c852896
Update index.md
imkas1 Jul 1, 2021
75b135c
regional report updates 07/15/2021
imkas1 Jul 15, 2021
abe270a
Update index.md
imkas1 Jul 15, 2021
af8a3bf
regional report 7/28/2021
imkas1 Jul 29, 2021
bec9337
Update index.md
imkas1 Jul 29, 2021
2409bb7
regional report updates 8/12/2021
imkas1 Aug 12, 2021
8bd138a
Update index.md
imkas1 Aug 12, 2021
0f6890d
regional report update 8/25/21
imkas1 Aug 26, 2021
b777185
Update index.md
imkas1 Aug 26, 2021
05eee6e
regional report update 2 - 8/25/12
imkas1 Aug 26, 2021
cca7290
Merge branch 'master' of https://github.com/agb85/covid-19
imkas1 Aug 26, 2021
59fd73c
Regional Report Updates 9/9/21
imkas1 Sep 9, 2021
de5496f
Update index.md
imkas1 Sep 9, 2021
c93f4a1
Regional Report Update 9/22/2021
imkas1 Sep 23, 2021
181271e
Update index.md
imkas1 Sep 23, 2021
dc4fa8d
regional report updates 10/07/2021
imkas1 Oct 8, 2021
8e89d5f
Update index.md
imkas1 Oct 8, 2021
765059e
regional model updates 10/21/2021
imkas1 Oct 22, 2021
24e8a63
Merge branch 'master' of https://github.com/agb85/covid-19
imkas1 Oct 22, 2021
c7985d1
Update index.md
imkas1 Oct 22, 2021
25fe6d0
Correction to Regional Report from 10/21/2021
imkas1 Oct 27, 2021
a381090
Update index.md
imkas1 Oct 27, 2021
346b8af
Update index.md
imkas1 Oct 28, 2021
538f60e
regional model updates 11/18/2021
imkas1 Nov 19, 2021
76bed46
Update index.md
imkas1 Nov 19, 2021
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602 changes: 602 additions & 0 deletions Data/proportionvariantovertime.csv

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57 changes: 0 additions & 57 deletions Model/Model params.csv

This file was deleted.

432 changes: 432 additions & 0 deletions Model/current report model with variant.R

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2,401 changes: 2,401 additions & 0 deletions Model/daily_vaccination_rates.csv

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12 changes: 12 additions & 0 deletions Model/model_params_with_variant.csv
Original file line number Diff line number Diff line change
@@ -0,0 +1,12 @@
scenalpha,scen,scenario,mag1,mag2,mag2a,mag3,mag3a,mag4,mag5,mag6,mag6a,mag6b,mag7,mag8,mag9,mag10,mag11,mag12,mag13,mag14,mag15,mag16,mag17,mag18,mag19,mag20,mag21,mag22,mag23,mag24,mag25,mag26,traj,ef1_1,ef1_2,t1,t2,t2a,t3,t3a,t4,t5,t6,t6a,t6b,t7,t8,t9,t10,t11,t12,t13,t14,t15,t16,t17,t18,t19,t20,t21,t22,t23,t24,t25,t26,ttraj,tproject,pS1,pS2,pS3,pS4,lambda,beta,hosp1,hosp2,hosp3,hosp4,hosp2b,hosp2c,hosp3b,hosp3c,hosp4b,hosp4c,dh1,dh2,dh3,dh4,dnh1,dnh2,dnh3,dnh4,hlos1,hlos2,hlos3,hlos4,hlos1a,hlos2a,hlos3a,hlos4a,dimmuneA,dimmuneI,n1,n2,n3,n4
current,april,1,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.6236,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,456,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
reduce 5%,april,2,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.5736,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,456,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
reduce 7%,april,3,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.5536,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,456,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
reduce 12%,april,4,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.5036,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,456,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
reduce 17%,april,5,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.4536,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,456,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
current,may,6,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.6236,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,478,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
reduce 5%,may,7,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.5736,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,478,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
reduce 7%,may,8,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.5536,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,478,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
reduce 12%,may,9,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.5036,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,478,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
reduce 17%,may,10,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8214,0.786,0.8763,0.7487,0.8223,0.7163,0.7574,0.6236,0.6236,0.6236,0.4536,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,478,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
week 04/19,trajectories,11,0,0.6719,0.8134,0.8215,0.8411,0.8896,0.8868,0.9117,0.7579,0.611,0.8169,0.8311,0.8226,0.7912,0.7601,0.7055,0.6861,0.6102,0.6648,0.7072,0.8446,0.8452,0.8216,0.7809,0.8716,0.7437,0.8186,0.7163,0.7574,0.6236,0.6236,0.6236,0.6236,41,52,59,66,80,94,108,122,136,150,164,178,192,206,220,234,248,262,276,290,304,318,332,346,360,374,388,402,416,430,439,439,0.110023,0.35705,0.561205,0.774879,1.395,0.4793,0.0227054,0.03656527,0.050782,0.0789884,0.03747127,0.02341227,0.049972,0.03312364,0.0724784,0.10043694,0.005504587,0.014716188,0.057513214,0.160570555,0.000013,0.0000822,0.000622705,0.027971448,5.8303,6.366447985,10.54149451,10.53665902,5.5747,5.231230631,8.486187615,8.136581647,190,365,1513005,1685869,1902963,738958
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