README clim4health

Author: Carles Milà

_quarto.yml

@@ -18,18 +18,10 @@ website:
         menu:
           - text: Overview
             href: docs/data4health/data4health.qmd
-          - text: "------"
-          - text: "Vignettes"
-          - text: Getting started
-            href: docs/data4health/data4health-vignette1.qmd 
       - text: "clim4health"
         menu:
           - text: Overview
             href: docs/clim4health/clim4health.qmd
-          - text: "------"
-          - text: "Vignettes"
-          - text: Getting started
-            href: docs/clim4health/clim4health-vignette1.qmd 
       - text: "GHRexplore"
         menu:
           - text: Overview
@@ -46,18 +38,10 @@ website:
         menu:
           - text: Overview
             href: docs/GHRmodel/GHRmodel.qmd
-          - text: "------"
-          - text: "Vignettes"
-          - text: Getting started
-            href: docs/GHRmodel/GHRmodel-vignette1.qmd 
       - text: "GHRpredict"
         menu:
           - text: Overview
             href: docs/GHRpredict/GHRpredict.qmd
-          - text: "------"
-          - text: "Vignettes"
-          - text: Getting started
-            href: docs/GHRpredict/GHRpredict-vignette1.qmd 
 
     right:
       - text: "About GHR"

content/upload-instructions.md

@@ -24,7 +24,6 @@ Add the link to the reference in the main page
 Customize the index page, e.g. add sections and logo
 
 
-
 # Reference
 
 Run in the R package project: generate-reference.R

docs/GHRexplore/GHRexplore.qmd

@@ -10,11 +10,11 @@ format:
 ```
 
 <!-- badges: start -->
-[![License](http://img.shields.io/badge/license-GPL%20%28%3E=%202%29-brightgreen.svg?style=flat)](http://www.gnu.org/licenses/gpl-2.0.html)
-[![CRAN status](https://img.shields.io/cran/v/GHRexplore)](https://cran.r-project.org/package=GHRexplore)
+[![License](https://img.shields.io/badge/License-AGPL_v3-brightgreen.svg?style=flat)](https://www.gnu.org/licenses/agpl-3.0.html)
 <!-- badges: end -->
 
-## Description
+
+## Overview
 
 ::: columns
 ::: {.column width="75%"}

docs/clim4health/README.qmd

@@ -0,0 +1,76 @@
+# clim4health  <img src='man/figures/logo_harmonize.png' align="right" width="9%" /> <span> <span> <img src='man/figures/logo_BSC.png' align="right" width="16%" /> 
+
+<!-- badges: start -->
+[![License](https://img.shields.io/badge/License-AGPL_v3-brightgreen.svg?style=flat)](https://www.gnu.org/licenses/agpl-3.0.html)
+<!-- badges: end -->
+
+<img src='man/figures/clim4health.jpg' align="right" width="14%" />
+
+## Overview
+
+**clim4health** is an R package designed to obtain, transform and export climate 
+data for their use in epidemiological analyses and other types of applications. 
+The package contains a series of functions structured in three sequential blocks: 
+input, transformation, and output. 
+
+In the input block, **clim4health** provides functions to download several types of 
+climate data including reanalyses, forecasts, hindcasts, and weather stations 
+and load them into memory for their processing. The transformation block includes 
+functions to postprocess and downscale climate data, perform spatiotemporal
+aggregations, as well as compute threshold-based suitability indicators. Finally, 
+in the output block, functions to visualize and export the transformed data are 
+provided.
+
+<br>
+<div align="center">
+<img src='man/figures/package_structure.jpg' width="80%" /></center>
+</div>
+<br> \
+
+**clim4health** is one of the packages developed by the
+[Global Health Resilience](https://www.bsc.es/discover-bsc/organisation/research-departments/global-health-resilience) (GHR)
+team at the [Barcelona Supercomputing Center](https://www.bsc.es/) (BSC) within 
+the [HARMONIZE](https://www.harmonize-tools.org/) project, which comprises 
+different R and Python libraries tailored for health, climate, environmental, 
+and socioeconomic data acquisition, harmonisation, and visualization.
+
+The package is currently under development and its expected release date 
+is **February 2026**.
+
+## Developers
+
+**[Emily Ball, PhD](https://www.bsc.es/ball-emily)**
+<a href="https://orcid.org/0000-0002-3002-4068" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Climate Services
+
+**[Alba Llabrés, PhD](https://www.bsc.es/llabres-alba)**
+<a href="https://orcid.org/0000-0003-2144-675X" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Climate Services
+
+**[Carles Milà, PhD](https://www.bsc.es/mila-garcia-carles)**
+<a href="https://orcid.org/0000-0003-0470-0760" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Global Health Resilience
+
+**[Raul Capellan Fernandez, MSc](https://www.bsc.es/capellan-fernandez-raul)** \
+Barcelona Supercomputing Center\
+Earth Data and Diagnostics
+
+**[Daniela Lührsen, MSc](https://www.bsc.es/luhrsen-daniela-sofie)**
+<a href="https://orcid.org/0009-0002-6340-5964" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Global Health Resilience
+
+**[Anna B. Kawiecki, PhD](https://www.bsc.es/kawiecki-peralta-ania)**
+<a href="https://orcid.org/0000-0002-0499-2612" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Global Health Resilience
+
+**[Rachel Lowe, PhD](https://www.bsc.es/lowe-rachel)**
+<a href="https://orcid.org/0000-0003-3939-7343" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Global Health Resilience (Group leader)
+
+

docs/clim4health/clim4health.qmd

@@ -1,5 +1,100 @@
 ---
 title: "clim4health"
+format: 
+  html:
+    toc: true
 ---
 
-Under construction.
+```{=html}
+<img src='/figures/clim4health/logo_BSC.png' 
+     width="24%" 
+     style="float:right; margin-left:50px;" />
+
+<img src='/figures/clim4health/logo_harmonize.png' 
+     width="12%" 
+     style="float:right;" />
+```
+
+<!-- badges: start -->
+[![License](https://img.shields.io/badge/License-AGPL_v3-brightgreen.svg?style=flat)](https://www.gnu.org/licenses/agpl-3.0.html)
+<!-- badges: end -->
+
+## Overview
+
+::: columns
+::: {.column width="75%"}
+**clim4health** is an R package designed to obtain, transform and export climate 
+data for their use in epidemiological analyses and other types of applications. 
+The package contains a series of functions structured in three sequential blocks: 
+input, transformation, and output. 
+
+In the input block, **clim4health** provides functions to download several types of 
+climate data including reanalyses, forecasts, hindcasts, and weather stations 
+and load them into memory for their processing. The transformation block includes 
+functions to postprocess and downscale climate data, perform spatiotemporal
+aggregations, as well as compute threshold-based suitability indicators. Finally, 
+in the output block, functions to visualize and export the transformed data are 
+provided.
+:::
+::: {.column width="5%"}
+:::
+::: {.column width="20%"}
+```{=html}
+<img src="/figures/clim4health.svg" width="100%">
+```
+:::
+:::
+
+<br>
+<center>
+<img src='/figures/clim4health/package_structure.jpg' width="80%" /></center>
+</center>
+<br> 
+
+**clim4health** is one of the packages developed by the
+[Global Health Resilience](https://www.bsc.es/discover-bsc/organisation/research-departments/global-health-resilience) (GHR)
+team at the [Barcelona Supercomputing Center](https://www.bsc.es/) (BSC) within 
+the [HARMONIZE](https://www.harmonize-tools.org/) project, which comprises 
+different R and Python libraries tailored for health, climate, environmental, 
+and socioeconomic data acquisition, harmonisation, and visualization.
+
+The package is currently under development and its expected release date 
+is **February 2026**.
+
+## Developers
+
+**[Emily Ball, PhD](https://www.bsc.es/ball-emily)**
+<a href="https://orcid.org/0000-0002-3002-4068" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Climate Services
+
+**[Alba Llabrés, PhD](https://www.bsc.es/llabres-alba)**
+<a href="https://orcid.org/0000-0003-2144-675X" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Climate Services
+
+**[Carles Milà, PhD](https://www.bsc.es/mila-garcia-carles)**
+<a href="https://orcid.org/0000-0003-0470-0760" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Global Health Resilience
+
+**[Raul Capellan Fernandez, MSc](https://www.bsc.es/capellan-fernandez-raul)** \
+Barcelona Supercomputing Center\
+Earth Data and Diagnostics
+
+**[Daniela Lührsen, MSc](https://www.bsc.es/luhrsen-daniela-sofie)**
+<a href="https://orcid.org/0009-0002-6340-5964" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Global Health Resilience
+
+**[Anna B. Kawiecki, PhD](https://www.bsc.es/kawiecki-peralta-ania)**
+<a href="https://orcid.org/0000-0002-0499-2612" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Global Health Resilience
+
+**[Rachel Lowe, PhD](https://www.bsc.es/lowe-rachel)**
+<a href="https://orcid.org/0000-0003-3939-7343" style="margin-left: 15px;"><img src="https://orcid.org/sites/default/files/images/orcid_16x16.png" alt="ORCID" style="width: 16px; height: 16px;" /></a>\
+Barcelona Supercomputing Center\
+Global Health Resilience (Group leader)
+
+

figures/clim4health/clim4health.jpg

@@ -23,7 +23,7 @@ format:
 
 ```{=html}
 <br> 
-<center><img src="figures/landing.png" width="80%"></center>
+<center><img src="figures/landing.png" width="75%"></center>
 <br> 
 ```