Skip to content

Commit

Permalink
Merge branch 'HopkinsIDD:main' into add-UGA_flucast-INFLAenza
Browse files Browse the repository at this point in the history
  • Loading branch information
@MayaSal
MayaSal authored Mar 1, 2024
2 parents 48920b8 + 7283364 commit 04ab68e
Show file tree
Hide file tree
Showing 12 changed files with 140,687 additions and 416 deletions.
2 changes: 1 addition & 1 deletion .github/workflows/validate-submission.yaml
View file
Original file line number Diff line number Diff line change
Expand Up @@ -31,7 +31,7 @@ jobs:
- name: Install HubValidations
run: |
install.packages("remotes")
remotes::install_github("Infectious-Disease-Modeling-Hubs/hubValidations")
remotes::install_github("Infectious-Disease-Modeling-Hubs/hubValidations", upgrade = "always")
shell: Rscript {0}

- name: Run validations
Expand Down
2 changes: 2 additions & 0 deletions README.md
View file
Original file line number Diff line number Diff line change
Expand Up @@ -5,6 +5,8 @@ Respiratory Syncytial Virus (RSV) is the #1 cause of hospitalizations in childre

This repository is designed to collect forecast data for the 2023-2024 RSV Forecast Hub run by Johns Hopkins University Infectious Disease Dynamics Group. This project collects forecasts for weekly new hospitalizations due to confirmed RSV.

The most recent RSV forecasts on the [RSV Forecast Hub dashboard](https://hopkinsidd.github.io/rsv-forecast-hub_website/).

## How to Participate:
This RSV Forecast Hub will serve as a collaborative forecasting challenge for weekly laboratory confirmed RSV hospital admissions. Each week, participants are asked to provide national- and jurisdiction-specific probabilistic forecasts of the weekly number of confirmed RSV hospitalizations for the following four weeks. The RSV Forecast Hub is open to any team willing to provide projections at the right temporal and spatial scales. We only require that participating teams share quantile estimates, along with a short model description and answers to a list of key questions about design.

Expand Down
228 changes: 3 additions & 225 deletions hub-config/tasks.json
View file
Original file line number Diff line number Diff line change
Expand Up @@ -142,7 +142,7 @@
}
]
},
{
{
"task_ids": {
"origin_date": {
"required": null,
Expand Down Expand Up @@ -264,231 +264,9 @@
"time_unit": "week"
}
]
},
{
"task_ids": {
"origin_date": {
"required": null,
"optional": [
"2023-11-12", "2023-11-19", "2023-11-26", "2023-12-03",
"2023-12-10", "2023-12-17", "2023-12-24", "2023-12-31",
"2024-01-07", "2024-01-14", "2024-01-21", "2024-01-28",
"2024-02-05", "2024-02-11", "2024-02-18", "2024-02-25",
"2024-03-03", "2024-03-10", "2024-03-17", "2024-03-24",
"2024-03-31", "2024-04-07", "2024-04-14", "2024-04-21",
"2024-04-28", "2024-05-05", "2024-05-12"
]
},
"target": {
"required": null,
"optional": ["peak size hosp"]
},
"horizon": {
"required": null,
"optional": null
},
"location": {
"required": null,
"optional": [
"US",
"01",
"02",
"04",
"05",
"06",
"08",
"09",
"10",
"11",
"12",
"13",
"15",
"16",
"17",
"18",
"19",
"20",
"21",
"22",
"23",
"24",
"25",
"26",
"27",
"28",
"29",
"30",
"31",
"32",
"33",
"34",
"35",
"36",
"37",
"38",
"39",
"40",
"41",
"42",
"44",
"45",
"46",
"47",
"48",
"49",
"50",
"51",
"53",
"54",
"55",
"56",
"72",
"78"
]
},
"age_group":{
"required":["0-130"],
"optional":["0-0.99","1-4","5-17","5-64","18-49","50-64","65-130"]
}
},
"output_type": {
"quantile":{
"output_type_id":{
"required":[0.01,0.025,0.05,0.1,0.15,0.2,0.25,0.3,0.35,0.4,0.45,0.5,0.55,0.6,0.65,0.7,0.75,0.8,0.85,0.9,0.95,0.975,0.99],
"optional":[0,1]
},
"value":{
"type":"double",
"minimum":0
}
}
},
"target_metadata": [
{
"target_id": "peak size hosp",
"target_name": "Peak size of hospitalization",
"target_units": "count",
"target_keys": {
"target": ["peak size hosp"]
},
"target_type": "discrete",
"is_step_ahead": false
}
]
},
{
"task_ids": {
"origin_date": {
"required": null,
"optional": [
"2023-11-12", "2023-11-19", "2023-11-26", "2023-12-03",
"2023-12-10", "2023-12-17", "2023-12-24", "2023-12-31",
"2024-01-07", "2024-01-14", "2024-01-21", "2024-01-28",
"2024-02-05", "2024-02-11", "2024-02-18", "2024-02-25",
"2024-03-03", "2024-03-10", "2024-03-17", "2024-03-24",
"2024-03-31", "2024-04-07", "2024-04-14", "2024-04-21",
"2024-04-28", "2024-05-05", "2024-05-12"
]
},
"target": {
"required": null,
"optional": ["peak time hosp"]
},
"horizon": {
"required": null,
"optional": null
},
"location": {
"required": null,
"optional": [
"US",
"01",
"02",
"04",
"05",
"06",
"08",
"09",
"10",
"11",
"12",
"13",
"15",
"16",
"17",
"18",
"19",
"20",
"21",
"22",
"23",
"24",
"25",
"26",
"27",
"28",
"29",
"30",
"31",
"32",
"33",
"34",
"35",
"36",
"37",
"38",
"39",
"40",
"41",
"42",
"44",
"45",
"46",
"47",
"48",
"49",
"50",
"51",
"53",
"54",
"55",
"56",
"72",
"78"
]
},
"age_group":{
"required":["0-130"],
"optional":["0-0.99","1-4","5-17","5-64","18-49","50-64","65-130"]
}
},
"output_type": {
"cdf":{
"output_type_id":{
"required":null,
"optional":null
},
"value":{
"type":"double",
"minimum":0,
"maximum":1
}
}
},
"target_metadata": [
{
"target_id": "peak time hosp",
"target_name": "Peak timing of hospitalization",
"target_units": "population",
"target_keys": {
"target": ["peak time hosp"]
},
"target_type": "discrete",
"is_step_ahead": false,
"time_unit": "week"
}
]
}


],
"submissions_due": {
"relative_to": "origin_date",
Expand Down
Loading

0 comments on commit 04ab68e

Please sign in to comment.