From aba4cc05847197fa54e5b7a40106ef200547cc90 Mon Sep 17 00:00:00 2001 From: jbracher Date: Mon, 11 Oct 2021 11:48:47 +0200 Subject: [PATCH 1/4] Updating file names and model_abb in metadata. --- ...anching.csv => 2021-07-05-KITmetricslab-bivar_branching.csv} | 0 ...anching.csv => 2021-07-12-KITmetricslab-bivar_branching.csv} | 0 ...branching.txt => metadata-KITmetricslab-bivar_branching.txt} | 2 +- 3 files changed, 1 insertion(+), 1 deletion(-) rename data-processed/KITmetricslab-bivariate_branching/{2021-07-05-KITmetricslab-bivariate_branching.csv => 2021-07-05-KITmetricslab-bivar_branching.csv} (100%) rename data-processed/KITmetricslab-bivariate_branching/{2021-07-12-KITmetricslab-bivariate_branching.csv => 2021-07-12-KITmetricslab-bivar_branching.csv} (100%) rename data-processed/KITmetricslab-bivariate_branching/{metadata-KITmetricslab-bivariate_branching.txt => metadata-KITmetricslab-bivar_branching.txt} (98%) diff --git a/data-processed/KITmetricslab-bivariate_branching/2021-07-05-KITmetricslab-bivariate_branching.csv b/data-processed/KITmetricslab-bivariate_branching/2021-07-05-KITmetricslab-bivar_branching.csv similarity index 100% rename from data-processed/KITmetricslab-bivariate_branching/2021-07-05-KITmetricslab-bivariate_branching.csv rename to data-processed/KITmetricslab-bivariate_branching/2021-07-05-KITmetricslab-bivar_branching.csv diff --git a/data-processed/KITmetricslab-bivariate_branching/2021-07-12-KITmetricslab-bivariate_branching.csv b/data-processed/KITmetricslab-bivariate_branching/2021-07-12-KITmetricslab-bivar_branching.csv similarity index 100% rename from data-processed/KITmetricslab-bivariate_branching/2021-07-12-KITmetricslab-bivariate_branching.csv rename to data-processed/KITmetricslab-bivariate_branching/2021-07-12-KITmetricslab-bivar_branching.csv diff --git a/data-processed/KITmetricslab-bivariate_branching/metadata-KITmetricslab-bivariate_branching.txt b/data-processed/KITmetricslab-bivariate_branching/metadata-KITmetricslab-bivar_branching.txt similarity index 98% rename from data-processed/KITmetricslab-bivariate_branching/metadata-KITmetricslab-bivariate_branching.txt rename to data-processed/KITmetricslab-bivariate_branching/metadata-KITmetricslab-bivar_branching.txt index c51a57474d..0ebfb047cb 100644 --- a/data-processed/KITmetricslab-bivariate_branching/metadata-KITmetricslab-bivariate_branching.txt +++ b/data-processed/KITmetricslab-bivariate_branching/metadata-KITmetricslab-bivar_branching.txt @@ -1,5 +1,5 @@ team_name: KITmetricslab -model_name: bivariate_branching +model_name: bivar_branching model_abbr: KITmetricslab-bivariate_branching model_contributors: Johannes Bracher (Karlsruhe Institute of Technology) website_url: https://github.com/jbracher/branching_process_delta From 19f5029fc20b9e690597b973225a643e5cfaddf7 Mon Sep 17 00:00:00 2001 From: jbracher Date: Mon, 11 Oct 2021 11:49:24 +0200 Subject: [PATCH 2/4] Updating folder name. --- .../2021-07-05-KITmetricslab-bivar_branching.csv | 0 .../2021-07-12-KITmetricslab-bivar_branching.csv | 0 .../metadata-KITmetricslab-bivar_branching.txt | 0 3 files changed, 0 insertions(+), 0 deletions(-) rename data-processed/{KITmetricslab-bivariate_branching => KITmetricslab-bivar_branching}/2021-07-05-KITmetricslab-bivar_branching.csv (100%) rename data-processed/{KITmetricslab-bivariate_branching => KITmetricslab-bivar_branching}/2021-07-12-KITmetricslab-bivar_branching.csv (100%) rename data-processed/{KITmetricslab-bivariate_branching => KITmetricslab-bivar_branching}/metadata-KITmetricslab-bivar_branching.txt (100%) diff --git a/data-processed/KITmetricslab-bivariate_branching/2021-07-05-KITmetricslab-bivar_branching.csv b/data-processed/KITmetricslab-bivar_branching/2021-07-05-KITmetricslab-bivar_branching.csv similarity index 100% rename from data-processed/KITmetricslab-bivariate_branching/2021-07-05-KITmetricslab-bivar_branching.csv rename to data-processed/KITmetricslab-bivar_branching/2021-07-05-KITmetricslab-bivar_branching.csv diff --git a/data-processed/KITmetricslab-bivariate_branching/2021-07-12-KITmetricslab-bivar_branching.csv b/data-processed/KITmetricslab-bivar_branching/2021-07-12-KITmetricslab-bivar_branching.csv similarity index 100% rename from data-processed/KITmetricslab-bivariate_branching/2021-07-12-KITmetricslab-bivar_branching.csv rename to data-processed/KITmetricslab-bivar_branching/2021-07-12-KITmetricslab-bivar_branching.csv diff --git a/data-processed/KITmetricslab-bivariate_branching/metadata-KITmetricslab-bivar_branching.txt b/data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt similarity index 100% rename from data-processed/KITmetricslab-bivariate_branching/metadata-KITmetricslab-bivar_branching.txt rename to data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt From 667e8e423ce0edec68c07a59ccacfd56790bcdc8 Mon Sep 17 00:00:00 2001 From: Johannes Bracher Date: Mon, 11 Oct 2021 11:53:18 +0200 Subject: [PATCH 3/4] Update metadata-KITmetricslab-bivar_branching.txt --- .../metadata-KITmetricslab-bivar_branching.txt | 6 ++---- 1 file changed, 2 insertions(+), 4 deletions(-) diff --git a/data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt b/data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt index 0ebfb047cb..37795dec5c 100644 --- a/data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt +++ b/data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt @@ -6,16 +6,14 @@ website_url: https://github.com/jbracher/branching_process_delta license: cc-by-4.0 team_model_designation: primary methods: Delta-variant and other cases are modelled as independent branching processes, with weekly growth\ - \ rates following random walks. Vaccination progress is currently not included.\ - \ Forecasts up to 4 wk are generated due to ensemble inclusion requirements, but 3 and 4 wk should be\ - \ interpreted with great caution. + \ rates following random walks. Forecasts for 3 and 4 wk are likely unreliable. team_funding: Helmholtz Innovation and Data Science Project "SIMCARD" data_inputs: JHU (confirmed cases), RKI sequencing data (variants) methods_long: "The total weekly incidence is modelled as the sum of two independent overdispersed branching\ \ processes (delta / non-delta cases; may be updated to other pairs of variants later), with the weekly \ growth rates following multiplicative random walks. Sequencing data are included via an additional binomial\ \ observation process with the probabilities for the two variants proportional to their occurrence in the two - \ latent branching processes. Posterior samples are enerated using the JAGS software. Priors were chosen as\ + \ latent branching processes. Posterior samples are generated using the JAGS software. Priors were chosen as\ \ 'uninformative' uniform distributions, but may be specified in a more informative fashion in the future.\ \ In order to be included in the ensemble forecasts are generated up to 4 wk into the future, but given the\ \ simple model structure, three and four-week-ahead forecasts should be interpreted with caution." From b128026670cff83988efa63632d98d723b44b1fc Mon Sep 17 00:00:00 2001 From: Johannes Bracher Date: Mon, 11 Oct 2021 12:43:23 +0200 Subject: [PATCH 4/4] Update metadata-KITmetricslab-bivar_branching.txt --- .../metadata-KITmetricslab-bivar_branching.txt | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt b/data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt index 37795dec5c..9e8cb3af9b 100644 --- a/data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt +++ b/data-processed/KITmetricslab-bivar_branching/metadata-KITmetricslab-bivar_branching.txt @@ -1,6 +1,6 @@ team_name: KITmetricslab model_name: bivar_branching -model_abbr: KITmetricslab-bivariate_branching +model_abbr: KITmetricslab-bivar_branching model_contributors: Johannes Bracher (Karlsruhe Institute of Technology) website_url: https://github.com/jbracher/branching_process_delta license: cc-by-4.0