Merge pull request #28 from albarema/main

updates new modules

access/index.qmd

@@ -33,12 +33,28 @@ Participants in courses co-hosted by the Sandbox can check [here](Computerome.qm
 
 ## GenomeDK
 
-In development.
+*In development*
 
-## Any other computing cluster
+:::{.callout-note title="GenomeDK workshops at AU" collapse="true"}
+Check out [GenomeDK Workshop Resources (AU)](https://hds-sandbox.github.io/GDKworkshops/) for access and an introduction to the HPC system and basic commands. 
+
+GenomeDK workshop content (in development): 
+
+- Some background
+- GenomeDK’s ABC
+- File System (FS) on GenomeDK
+- Working with Files
+- Project management
+- Downloads and Copies
+- Package/Environment management
+- Running a Job
+:::
+
+## Any other computing cluster / local PC
+
+Some of our modules are available in a containerized version on Docker Hub, making them accessible on any system, while others are specifically designed for UCloud. Additionally, some modules provide separate instructions for setting up environments locally or on an HPC system.
+
+Find the docker images in https://hub.docker.com/u/hdssandbox. 
 
-In development.
 
-## Your local PC
 
-In development.

index.qmd

@@ -14,15 +14,16 @@ bibliography: resources/references.bib
 </div>
 
 
-::: {layout-nrow=1 layout-ncol=5 .grid-cell .layout-border}
+::: {.grid-cell .layout-border}
 ::: {.column}
 [![HPC Lab](../images/HPC.png){class="hover-target" width="100%"}](https://hds-sandbox.github.io/modules/#sandbox-hpc)
 **<span style="display: block; margin-top:15px; text-align: center; font-size: 1.2em;">HPC Lab</span>**
 
 <div style="text-align: center;">
-    Research Data Management
     HPC launch
     HPC pipes
+    GenomeDK workshops
+    Research Data Management
 </div>
 :::
 
@@ -44,6 +45,7 @@ bibliography: resources/references.bib
 <div style="text-align: center;">
     Bulk RNAseq
     Single-cell RNAseq
+    Advanced single-cell
 </div>
 :::
 

modules/index.qmd

@@ -29,10 +29,11 @@ You can **access our training modules** through:
 Computing skills are an important foundation for health data science (and using the above training modules), but formal training is often lacking as biomedical researchers navigate increasingly difficult computational tasks in their projects. These skills range from programming to the use of high-performance computers (HPC) to proper research data management.
 
 - [RDM for biodata](https://hds-sandbox.github.io/RDM_biodata_course) (workshop on how to handle NGS data following simple guidelines to increase the FAIRability of your data)
-- [HPC-Lab (content in development)](https://hds-sandbox.github.io/HPC-lab/)
-  - [HPC launch (workshop in development)](https://hds-sandbox.github.io/HPC-lab/develop/hpc-intro.html)
-  - [HPC pipes (workshop in development)](https://hds-sandbox.github.io/HPC-lab/develop/p0-intro.html)
-- [HeaDS DataLab workshop materials](https://center-for-health-data-science.github.io/index.html) (workshops for programming and good practices developed by the Center for Health Data Science at the University of Copenhagen, which are sometimes co-taught by Sandbox staff! Includes **R**, **python**, **bash**, and **git**!)
+- [HPC-Lab](https://hds-sandbox.github.io/HPC-lab/) (content in development)
+  - [HPC launch](https://hds-sandbox.github.io/HPC-lab/develop/hpc-intro.html)
+  - [HPC pipes](https://hds-sandbox.github.io/HPC-lab/develop/p0-intro.html)
+- [GenomeDK Workshop Resources (AU)](https://hds-sandbox.github.io/GDKworkshops/) (content in development)
+- [HeaDS DataLab workshop materials (KU)](https://center-for-health-data-science.github.io/index.html) (workshops for programming and good practices developed by the Center for Health Data Science at the University of Copenhagen, which are sometimes co-taught by Sandbox staff! Includes **R**, **python**, **bash**, and **git**!)