| 143d1b9 | leftygray | 08 June 2018, 06:58:13 UTC | Edit to license statement | 08 June 2018, 06:58:13 UTC |
| 3980888 | leftygray | 04 June 2018, 08:15:43 UTC | Minor updates to readme and other files to add paper citation | 04 June 2018, 08:15:43 UTC |
| 25ed017 | leftygray | 18 December 2017, 02:46:33 UTC | Updated DOI and version | 18 December 2017, 02:46:33 UTC |
| 9c4fa9a | leftygray | 18 December 2017, 02:33:39 UTC | Minor updates to README file | 18 December 2017, 02:33:39 UTC |
| 65b4290 | leftygray | 18 December 2017, 02:25:55 UTC | Minor updates to front matter | 18 December 2017, 02:25:55 UTC |
| cd3baf3 | leftygray | 18 December 2017, 01:55:00 UTC | Minor update to function | 18 December 2017, 01:55:00 UTC |
| cda599c | leftygray | 18 December 2017, 01:49:50 UTC | Updated main results | 18 December 2017, 01:49:50 UTC |
| 45d9ebb | leftygray | 18 December 2017, 01:46:54 UTC | Updated figure axis labels | 18 December 2017, 01:46:54 UTC |
| 28e4ddf | leftygray | 18 December 2017, 01:44:39 UTC | Fixed a small bug in partner prior uncertianty calculation | 18 December 2017, 01:44:39 UTC |
| 5572721 | leftygray | 18 December 2017, 01:43:43 UTC | Updated some figures | 18 December 2017, 01:43:43 UTC |
| 31e1e35 | leftygray | 11 December 2017, 06:51:14 UTC | Slight change in formatting of results file | 11 December 2017, 06:51:14 UTC |
| 8ac7da8 | leftygray | 11 December 2017, 06:50:47 UTC | Setup additional run for Opposites Attract results | 11 December 2017, 06:50:47 UTC |
| f7baa6e | leftygray | 11 December 2017, 06:50:13 UTC | Tweaked figures in response to reviewers | 11 December 2017, 06:50:13 UTC |
| 678638d | leftygray | 11 December 2017, 06:49:39 UTC | Tweaked figures in response to reviewers | 11 December 2017, 06:49:39 UTC |
| e6e72b6 | leftygray | 02 June 2017, 06:39:04 UTC | Added DOI and associated links | 02 June 2017, 06:39:04 UTC |
| 654434b | leftygray | 01 June 2017, 07:11:14 UTC | Added all the result .csv files to the repository | 01 June 2017, 07:11:14 UTC |
| 2c56e0b | leftygray | 30 May 2017, 07:15:02 UTC | Added a license | 30 May 2017, 07:15:02 UTC |
| 559b57a | leftygray | 30 May 2017, 07:11:35 UTC | Final edits to main README file | 30 May 2017, 07:11:35 UTC |
| d2c9c8c | leftygray | 30 May 2017, 07:08:21 UTC | Added the ECDC model output files | 30 May 2017, 07:08:21 UTC |
| ad45966 | leftygray | 30 May 2017, 07:06:21 UTC | Updated all the README files | 30 May 2017, 07:06:21 UTC |
| b093ab0 | leftygray | 30 May 2017, 06:02:00 UTC | Re-added results...sigh | 30 May 2017, 06:02:00 UTC |
| f332029 | leftygray | 30 May 2017, 05:59:36 UTC | Removed unecessary results files | 30 May 2017, 05:59:36 UTC |
| d75c5a0 | leftygray | 30 May 2017, 05:39:45 UTC | Removed obsolete results summary file | 30 May 2017, 05:39:45 UTC |
| 5f930d2 | leftygray | 30 May 2017, 05:35:36 UTC | Some code editing | 30 May 2017, 05:35:36 UTC |
| 81b37bf | leftygray | 17 March 2017, 05:57:16 UTC | A couple of tweaks to the cascade code | 17 March 2017, 05:57:16 UTC |
| 18eb981 | leftygray | 16 March 2017, 06:00:05 UTC | Fixed a heap of plotting bugs for the paper | 16 March 2017, 06:00:05 UTC |
| 1026006 | leftygray | 15 March 2017, 00:45:59 UTC | Updated .gitignore | 15 March 2017, 00:45:59 UTC |
| 2f81ff4 | leftygray | 15 March 2017, 00:44:21 UTC | Updated cascade data and output files stored in the repository | 15 March 2017, 00:44:21 UTC |
| e5b0503 | leftygray | 14 March 2017, 23:57:56 UTC | Added cascade estimate result files to repository | 14 March 2017, 23:57:56 UTC |
| d0e63a2 | leftygray | 14 March 2017, 23:39:12 UTC | Added some extra outputs for ease of putting results in the paper | 14 March 2017, 23:39:12 UTC |
| 522f53e | leftygray | 18 January 2017, 04:27:05 UTC | Updated axis labelling | 18 January 2017, 04:27:05 UTC |
| a89d2be | leftygray | 18 January 2017, 04:19:35 UTC | Setup to explore different priors and cascade estimates | 18 January 2017, 04:19:35 UTC |
| 7ce78c1 | leftygray | 12 January 2017, 23:45:07 UTC | Added additional cascade error and suppressed prior options | 12 January 2017, 23:45:07 UTC |
| 843360c | leftygray | 11 January 2017, 07:19:07 UTC | Setup for big run with 2015 cascade estimates | 11 January 2017, 07:19:07 UTC |
| 0362411 | leftygray | 11 January 2017, 07:17:12 UTC | NOW Fixed up some legends due to update in ggplot | 11 January 2017, 07:17:12 UTC |
| f7348ff | leftygray | 11 January 2017, 07:16:22 UTC | Fixed up some legends due to update in ggplot | 11 January 2017, 07:16:22 UTC |
| 10e2353 | leftygray | 11 January 2017, 06:58:53 UTC | Updated input data for 2015 | 11 January 2017, 06:58:53 UTC |
| 1b5bede | leftygray | 11 January 2017, 05:58:31 UTC | Set up analysis code to handle different analysis years | 11 January 2017, 05:58:31 UTC |
| 824411e | leftygray | 11 January 2017, 05:54:56 UTC | Updated ignore file | 11 January 2017, 05:54:56 UTC |
| 4e92eda | leftygray | 11 January 2017, 05:54:08 UTC | Added new input data files | 11 January 2017, 05:54:08 UTC |
| bd67513 | leftygray | 11 January 2017, 05:51:40 UTC | Updated cascade code to handle estimates for each year | 11 January 2017, 05:51:40 UTC |
| 86a867a | leftygray | 11 January 2017, 05:27:32 UTC | Everything set for PARTNER prior run | 11 January 2017, 05:27:32 UTC |
| 150b0e0 | leftygray | 11 January 2017, 05:09:04 UTC | Finished setting up exponential beta4 prior | 11 January 2017, 05:09:04 UTC |
| 3816022 | leftygray | 11 January 2017, 04:53:43 UTC | Setup to run with an exponential prior for beta4 | 11 January 2017, 04:53:43 UTC |
| 7e6d225 | leftygray | 11 January 2017, 04:08:15 UTC | Made sure saved seed is loaded | 11 January 2017, 04:08:15 UTC |
| 9150ce6 | leftygray | 11 January 2017, 04:05:45 UTC | Added seed for reproducing results | 11 January 2017, 04:05:45 UTC |
| 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 |
