appliedepidata/_pkgdown.yml at main · appliedepi/appliedepidata · GitHub

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url: https://appliedepi.github.io/appliedepidata/
template:
  bootstrap: 5

reference:

- title: Functions
  contents:
  - list_data
  - search_data
  - get_data
  - save_data
  - create_desc


- title: Data
- subtitle: AJS in Am Timan, Chad (2016) - English
  contents:
  - AJS_AmTiman
  - AJS_AmTiman_population
  - Blocksshape
  - Quartiersshape

- subtitle: Feveriosis surveillance data, Feveria (2025) - English
  contents:
  - feveriosis_main
  - feveriosis_recent

- subtitle: Multidisease lab and surveillance data, Feveria (2024) - English
  contents:
  - multidisease_tests
  - multidisease_notifications

- subtitle: Multidisease lab and surveillance data, Feveria (2024) - French
  contents:
  - multi_maladies_tests
  - multi_maladies_notifications

- subtitle: Multidisease lab and surveillance data, Feveria (2024) - Spanish
  contents:
  - pruebas_multienfermedad
  - notificaciones_multienfermedad

- subtitle: Multidisease lab and surveillance data, Feveria (2024) - Portuguese
  contents:
  - testes_multidoencas
  - notificacoes_multidoencas

- subtitle: Sitrep example datasets - English
  contents:
  - mortality_survey_data
  - mortality_survey_dict

- subtitle: COVID-19 data in Fulton County, USA (2020) - English
  contents:
  - fulton_data
  - fulton_data_clean
  - fulton_population

- subtitle: Fictional Mpox data from 5 European countries (2022) - English
  contents:
  - mpox_linelist
  - mpox_aggregate_table

- subtitle: Fictional linelist data from Salmonella outbreak in Stegen, Germany (1998) - English
  contents:
  - stegentira_data

- subtitle: Influenza A H7N9 data in China (2013) - English
  contents:
  - fluH7N9_China_2013

- subtitle: Fictional linelist data from Ebola outbreak in Sierra Leone (2014) - English
  contents:
  - linelist_raw
  - linelist_cleaned_excel
  - linelist_cleaned_rds
  - hospital_linelists
  - linelist_cleaned_with_adm3
  - cleaning_dict
  - sle_adm3
  - sle_admpop_adm3_2020
  - epinow_res
  - epinow_res_small
  - generation_time
  - incubation_period

- subtitle: Fictional case data for a generic disease to demonstrate contact tracing (2020) - English
  contents:
  - cases_clean
  - contacts_clean
  - followups_clean
  - relationships_clean

- subtitle: Fictional counts of malaria cases from Mozambique (2019) - English
  contents:
  - district_weekly_count_data
  - malaria_facility_count_data

- subtitle: Next generation sequencing data of Shigella surveillance samples from Belgium (2013-2019) - English
  contents:
  - Shigella_tree
  - sample_data_Shigella_tree
  - Shigella_subtree_2

- subtitle: Fictional country demographic and mortality data to demonstrate standardisation (2020) - English
  contents:
  - country_demographics
  - world_standard_population_by_sex

- subtitle: Other fictional example data
  contents:
  - likert_data

- subtitle: Fictional data for a mortality survey - English
  contents:
  - survey_data
  - survey_dict
  - population


- subtitle: Campylobacter surveillance data from Germany (2001-2011) - English
  contents:
  - campylobacter_germany
  - germany_weather


- subtitle: Cholera surveillance data, Viraland (2021) - English
  contents:
  - viraland_cholera_20210525_linelist
  - viraland_cholera_20210617_linelist
  - viraland_cholera_20210721_linelist
  - viraland_cholera_20210721_linelist_raw
  - viraland_cholera_20210721_labs