| 1929229 | leftygray | 13 December 2016, 06:14:14 UTC | Set up generation of final results | 13 December 2016, 06:14:14 UTC |
| a48b391 | leftygray | 13 December 2016, 01:22:43 UTC | Fixed slight bug in error ranges | 13 December 2016, 01:22:43 UTC |
| 7aa3858 | leftygray | 13 December 2016, 00:39:02 UTC | Some results tidying | 13 December 2016, 00:39:02 UTC |
| 57aea1d | leftygray | 12 December 2016, 06:27:56 UTC | Fixed a bug in how the error ranges were specified | 12 December 2016, 06:27:56 UTC |
| 2ab9711 | leftygray | 12 December 2016, 06:26:04 UTC | Fixed a small bug in how I was calculating 95% CrIs | 12 December 2016, 06:26:04 UTC |
| 6ba940d | leftygray | 08 December 2016, 22:57:14 UTC | Save some extra results | 08 December 2016, 22:57:14 UTC |
| cda66d2 | leftygray | 08 December 2016, 04:39:59 UTC | Updated some plots | 08 December 2016, 04:39:59 UTC |
| d190a2b | leftygray | 02 September 2016, 05:17:18 UTC | Fixed some minor bugs and tidied up final figures | 02 September 2016, 05:17:18 UTC |
| f78d867 | leftygray | 17 August 2016, 02:15:22 UTC | Set up summary table of results for proportion of infections due to each stage | 17 August 2016, 02:15:22 UTC |
| 4771e80 | leftygray | 15 August 2016, 08:01:55 UTC | Created combined beta over time and percent of new infections over time plots | 15 August 2016, 08:01:55 UTC |
| c964af4 | leftygray | 15 August 2016, 01:53:12 UTC | Updated incidence fitting plot to split legend | 15 August 2016, 01:53:12 UTC |
| 6041184 | leftygray | 11 August 2016, 06:08:59 UTC | Created publication plots for cascade and new infections | 11 August 2016, 06:08:59 UTC |
| 7e2c4e9 | leftygray | 09 August 2016, 02:22:07 UTC | removed compare plot | 09 August 2016, 02:22:07 UTC |
| 9a5db7d | leftygray | 09 August 2016, 02:21:00 UTC | Fixed up new infections fitting plot | 09 August 2016, 02:21:00 UTC |
| 92f4bde | leftygray | 09 August 2016, 01:56:06 UTC | Major change to how results are presented. Getting rid of mode and replacing median with mean in some places | 09 August 2016, 01:56:06 UTC |
| f32df61 | leftygray | 08 August 2016, 07:58:34 UTC | Finished the time varying incidence distribution plots | 08 August 2016, 07:58:34 UTC |
| 82d6a6e | leftygray | 04 August 2016, 00:45:06 UTC | Final settings | 04 August 2016, 00:45:06 UTC |
| 2454cce | leftygray | 03 August 2016, 16:49:46 UTC | Added all ECDC estimates and plot of undiagnosed estimats compared to COUNT | 03 August 2016, 16:49:46 UTC |
| cf5945f | leftygray | 03 August 2016, 15:52:46 UTC | Updated settings | 03 August 2016, 15:52:46 UTC |
| caa8656 | leftygray | 03 August 2016, 15:52:12 UTC | Updated functions to handle start and end posteriors | 03 August 2016, 15:52:12 UTC |
| e0c64dc | leftygray | 03 August 2016, 15:50:40 UTC | Updated plots to handle start and finish beta posteriors | 03 August 2016, 15:50:40 UTC |
| 64e797e | leftygray | 03 August 2016, 14:21:19 UTC | Fixed up file saving | 03 August 2016, 14:21:19 UTC |
| 930cd60 | leftygray | 03 August 2016, 13:49:49 UTC | Fixed bug in line comparison | 03 August 2016, 13:49:49 UTC |
| cc00c90 | leftygray | 03 August 2016, 13:30:37 UTC | Setup all the results for time varying results | 03 August 2016, 13:30:37 UTC |
| 79cd829 | leftygray | 03 August 2016, 12:10:18 UTC | Created an incidence calculation function for time varying beta values | 03 August 2016, 12:10:18 UTC |
| 19f885d | leftygray | 03 August 2016, 11:11:32 UTC | Added more quick results | 03 August 2016, 11:11:32 UTC |
| 4143299 | leftygray | 03 August 2016, 11:04:53 UTC | testing alternative incidence | 03 August 2016, 11:04:53 UTC |
| 5ddd21d | leftygray | 02 August 2016, 10:02:22 UTC | Including ECDC estimates | 02 August 2016, 10:02:22 UTC |
| c5ec9da | leftygray | 02 August 2016, 02:13:14 UTC | Some tweaks | 02 August 2016, 02:13:14 UTC |
| 0bce43a | leftygray | 01 August 2016, 12:22:56 UTC | Updated bayes calculations for ECDC estimates | 01 August 2016, 12:22:56 UTC |
| 39a2e4f | leftygray | 01 August 2016, 12:04:35 UTC | Merged Bayes functions code from bayes-undiagnosed branch | 01 August 2016, 12:04:35 UTC |
| 752be54 | leftygray | 01 August 2016, 11:59:20 UTC | Updated exploratory cascade incidence calculations | 01 August 2016, 11:59:20 UTC |
| 9c835b6 | leftygray | 01 August 2016, 11:27:16 UTC | Added new infections estimates from ecdc | 01 August 2016, 11:27:16 UTC |
| 3ac8f40 | leftygray | 01 August 2016, 11:21:58 UTC | Added ecdc estimates option | 01 August 2016, 11:21:58 UTC |
| 288684e | leftygray | 01 August 2016, 11:02:18 UTC | Merged cascade and basic incidence files from bayes-undiagnosed branch | 01 August 2016, 11:02:18 UTC |
| 80aafb5 | leftygray | 01 August 2016, 07:53:48 UTC | Updated .gitignore | 01 August 2016, 07:53:48 UTC |
| 67898d7 | leftygray | 17 May 2016, 10:11:38 UTC | Exploring different % undiagnosed | 17 May 2016, 10:11:38 UTC |
| 8aba809 | leftygray | 17 May 2016, 06:46:32 UTC | Added options to select different cascade estimates | 17 May 2016, 06:46:32 UTC |
| cf07fe5 | leftygray | 17 May 2016, 06:15:11 UTC | Small adjustment to the saving approach | 17 May 2016, 06:15:11 UTC |
| 87a2d5f | leftygray | 16 May 2016, 07:14:13 UTC | Finished doing linear proportion undiagnosed | 16 May 2016, 07:14:13 UTC |
| 053b370 | leftygray | 16 May 2016, 06:45:17 UTC | Started processs of using a linear cahnge in propdiagnosed | 16 May 2016, 06:45:17 UTC |
| 9e84deb | leftygray | 15 April 2016, 06:45:43 UTC | fixed up some labelling issues | 15 April 2016, 06:45:43 UTC |
| bff2126 | leftygray | 15 April 2016, 03:41:54 UTC | Chnaged scales and labeling options of plots. Added a combined plot | 15 April 2016, 03:41:54 UTC |
| 0ca2e62 | leftygray | 14 April 2016, 05:31:16 UTC | Updated results and explored variation in priors | 14 April 2016, 05:31:16 UTC |
| 0ba9f1f | leftygray | 14 April 2016, 02:18:05 UTC | Fixed various bugs and output options | 14 April 2016, 02:18:05 UTC |
| 00dfbd3 | leftygray | 14 April 2016, 00:37:12 UTC | Changed code to handle extra parmater for f2 | 14 April 2016, 00:37:12 UTC |
| 1be2f67 | leftygray | 14 April 2016, 00:22:20 UTC | Added time varying stage plots | 14 April 2016, 00:22:20 UTC |
| dd45fce | leftygray | 13 April 2016, 12:08:47 UTC | Added FrontMatter information | 13 April 2016, 12:08:47 UTC |
| 0159397 | leftygray | 13 April 2016, 12:08:20 UTC | Tidied up code | 13 April 2016, 12:08:20 UTC |
| 12abbfc | leftygray | 13 April 2016, 12:07:51 UTC | Finished FrontMatter function | 13 April 2016, 12:07:51 UTC |
| f108f90 | leftygray | 13 April 2016, 08:08:11 UTC | End of day commit | 13 April 2016, 08:08:11 UTC |
| d05a675 | leftygray | 13 April 2016, 08:06:23 UTC | Fixed a minor bug | 13 April 2016, 08:06:23 UTC |
| 70ca1f7 | leftygray | 13 April 2016, 08:05:56 UTC | Added a function for printing out some useful info | 13 April 2016, 08:05:56 UTC |
| 853f9f0 | leftygray | 13 April 2016, 07:18:49 UTC | Converted to a vanilla markdown script | 13 April 2016, 07:18:49 UTC |
| f484f65 | leftygray | 13 April 2016, 07:15:38 UTC | Tidied up code and added a corner plot | 13 April 2016, 07:15:38 UTC |
| 43158de | leftygray | 13 April 2016, 05:49:55 UTC | Fixed small bug with loading results | 13 April 2016, 05:49:55 UTC |
| 7f3f53c | leftygray | 13 April 2016, 04:42:09 UTC | A bug fix and added additional priors | 13 April 2016, 04:42:09 UTC |
| c39896a | leftygray | 13 April 2016, 00:12:44 UTC | Added truncated lognormal option and created a option selection function | 13 April 2016, 00:12:44 UTC |
| 95fe042 | leftygray | 12 April 2016, 12:50:39 UTC | Set up various options for f4 prior | 12 April 2016, 12:50:39 UTC |
| ec5de15 | leftygray | 12 April 2016, 12:40:08 UTC | Started setting up corner plot | 12 April 2016, 12:40:08 UTC |
| 9a7cc5a | leftygray | 12 April 2016, 12:39:43 UTC | Recoded using PriorSamples for ease of use later | 12 April 2016, 12:39:43 UTC |
| 60e6fe8 | leftygray | 12 April 2016, 12:34:28 UTC | Set up f4 prior options and appropriate saving of results | 12 April 2016, 12:34:28 UTC |
| 014e01a | leftygray | 12 April 2016, 12:33:59 UTC | Added a prior generation function | 12 April 2016, 12:33:59 UTC |
| 9291539 | leftygray | 12 April 2016, 12:11:02 UTC | Set up alternative prior generation and saving of results | 12 April 2016, 12:11:02 UTC |
| 76d14cb | leftygray | 12 April 2016, 12:07:20 UTC | Removed relative incidence function as it is uneccessay | 12 April 2016, 12:07:20 UTC |
| fc8abcf | leftygray | 12 April 2016, 10:26:24 UTC | Added an alternative incidence calculation function | 12 April 2016, 10:26:24 UTC |
| 6bd1447 | leftygray | 12 April 2016, 10:22:38 UTC | Changed prior for suppressed to a lognormal | 12 April 2016, 10:22:38 UTC |
| 712ce64 | leftygray | 01 April 2016, 06:02:13 UTC | Finished results plots | 01 April 2016, 06:02:13 UTC |
| dc36031 | leftygray | 01 April 2016, 02:19:31 UTC | Set up results generation and did some general code tidying | 01 April 2016, 02:19:31 UTC |
| 1f75d16 | leftygray | 01 April 2016, 01:29:02 UTC | Renamed results script | 01 April 2016, 01:29:02 UTC |
| e8c4896 | leftygray | 01 April 2016, 01:28:03 UTC | Finished setting up proportional incidence plot and moved things into results script | 01 April 2016, 01:28:03 UTC |
| f5f4ab9 | leftygray | 01 April 2016, 00:13:30 UTC | Added a proportion incidence plot | 01 April 2016, 00:13:30 UTC |
| 766bceb | leftygray | 31 March 2016, 04:35:45 UTC | Code tidying | 31 March 2016, 04:35:45 UTC |
| 69e4a7b | leftygray | 31 March 2016, 04:05:54 UTC | Shifted distribution plotting into another Bayes functions | 31 March 2016, 04:05:54 UTC |
| f37b9e7 | leftygray | 31 March 2016, 03:44:29 UTC | Created a separate Bayes functions script | 31 March 2016, 03:44:29 UTC |
| 19f59ad | leftygray | 30 March 2016, 05:30:36 UTC | End of day commit | 30 March 2016, 05:30:36 UTC |
| 9e5581b | leftygray | 30 March 2016, 05:30:17 UTC | Tidied up prior, posterior plots | 30 March 2016, 05:30:17 UTC |
| f285db7 | leftygray | 30 March 2016, 03:37:12 UTC | Fixed some bugs | 30 March 2016, 03:37:12 UTC |
| 3f8cdd9 | leftygray | 30 March 2016, 01:06:44 UTC | 2-CascadeIncidenceBayes.Rmd | 30 March 2016, 01:06:44 UTC |
| fc4f9da | leftygray | 30 March 2016, 00:55:28 UTC | Removed error priors and started setting this up for generating results | 30 March 2016, 00:55:28 UTC |
| e8290cc | leftygray | 30 March 2016, 00:44:45 UTC | Setup the prior and posterior plots | 30 March 2016, 00:44:45 UTC |
| b2edabe | leftygray | 30 March 2016, 00:02:02 UTC | Add a nice incidence plot | 30 March 2016, 00:02:02 UTC |
| 5e61564 | leftygray | 30 March 2016, 00:01:33 UTC | Added useful ploting function | 30 March 2016, 00:01:33 UTC |
| 3c96de0 | leftygray | 29 March 2016, 11:29:19 UTC | Merge branch 'alternate-approach' | 29 March 2016, 11:29:19 UTC |
| eab445d | leftygray | 29 March 2016, 11:26:27 UTC | Commit prior to merge | 29 March 2016, 11:26:27 UTC |
| 8771d96 | leftygray | 29 March 2016, 08:06:12 UTC | Turned off trend weighting | 29 March 2016, 08:06:12 UTC |
| 44ec354 | leftygray | 29 March 2016, 08:02:19 UTC | Set things up for a big run | 29 March 2016, 08:02:19 UTC |
| 4b6997f | leftygray | 29 March 2016, 07:27:21 UTC | Started thinking about a more complicated error approach | 29 March 2016, 07:27:21 UTC |
| 8477e45 | leftygray | 29 March 2016, 07:05:47 UTC | Started adding a comparison plot | 29 March 2016, 07:05:47 UTC |
| 83396bc | leftygray | 29 March 2016, 07:02:04 UTC | Updated to include comparison with linear fit and automatic error ranges | 29 March 2016, 07:02:04 UTC |
| 1845f28 | leftygray | 29 March 2016, 07:01:24 UTC | Slight tweaks and code tidying | 29 March 2016, 07:01:24 UTC |
| c88eac3 | leftygray | 24 March 2016, 02:12:06 UTC | Updated regression methods to look at a best fit option | 24 March 2016, 02:12:06 UTC |
| 4cbc8d0 | leftygray | 24 March 2016, 01:46:41 UTC | Replace original approach files with new approach draft scripts | 24 March 2016, 01:46:41 UTC |
| 15ad33c | leftygray | 24 March 2016, 01:44:02 UTC | Added new approach scripts | 24 March 2016, 01:44:02 UTC |
| ee1a86b | leftygray | 24 March 2016, 01:41:14 UTC | Updated .gitignore | 24 March 2016, 01:41:14 UTC |
| 7db05f8 | leftygray | 24 March 2016, 01:37:16 UTC | Initial results generation script | 24 March 2016, 01:37:16 UTC |
| 349bd21 | leftygray | 24 March 2016, 01:36:51 UTC | Added original approach to doing the Bayesian analysis | 24 March 2016, 01:36:51 UTC |
| af2c23e | leftygray | 24 March 2016, 01:36:00 UTC | Added original incidence estimate approach using regression | 24 March 2016, 01:36:00 UTC |
| 3eae47f | leftygray | 24 March 2016, 01:35:14 UTC | Added main data files | 24 March 2016, 01:35:14 UTC |
| ac7bb71 | leftygray | 24 March 2016, 01:33:02 UTC | Added git ignore file | 24 March 2016, 01:33:02 UTC |
