Merge pull request #81 from AustralianBioCommons/main

Updates

_data/affiliations.yml

@@ -1,20 +1,25 @@
 - name: Australian BioCommons
-  image_url: /assets/img/main_logo.png
+  image_url: /images/infrastructures/Australian-Biocommons-Logo-Horizontal-RGB.jpg
   expose: true
   type: infrastructure
   url: https://www.biocommons.org.au/
 - name: Bioplatforms Australia
-  image_url: /images/infrastructures/BioplatformsAustralia.png
+  image_url: /images/infrastructures/Bioplatforms_full-logo_whitebg.png
   expose: true
   type: infrastructure
   url: https://bioplatforms.com/
 - name: Galaxy Australia
-  image_url: /images/infrastructures/galaxy-aust-logo-portrait-CMYK.png
+  image_url: /images/infrastructures/Galaxy-Aust-Logo-Horizontal-RGB.jpg
   expose: true
   type: infrastructure
   url: https://usegalaxy.org.au/
 - name: University of Sydney
   image_url: /images/infrastructures/USYD_logo.jpeg
   expose: true
   type: infrastructure
-  url: https://www.sydney.edu.au/
+  url: https://www.sydney.edu.au/
+- name: Threatened Species Initiative
+  image_url: /images/infrastructures/Threatened Species Initiative_TSI_whitebg.png
+  expose: true
+  type: infrastructure
+  url: https://threatenedspeciesinitiative.com/

about/contributing.md

@@ -4,25 +4,13 @@ toc: false
 ---
 
 
-## GitHub issues
+## I've got a suggestion or spotted an error
 
-If you think something should be added, or if you find an error, bug or mistake, please [create an issue](https://github.com/AustralianBioCommons/how-to-guides/issues/new) detailing the problem. We will do our best to fix the issue as soon as possible. You can also create an issue by clicking the `!` symbol next to the title on any of the pages.
+If you think something should be added, or if you find an error, bug or mistake, please [create an issue](https://github.com/AustralianBioCommons/how-to-guides/issues/new) detailing the problem. We will do our best to fix the issue as soon as possible. You can also create an issue by clicking the `!` symbol next to the title on any of the pages. Thanks for letting us know!
 
 
-## Pull Request
+## Adding guides
 
-If you want to add content to this site, please do the following:
+If you have your own How-to Guide that you want to share, please follow the instructions in the [Australian BioCommons How-to Hub](https://australianbiocommons.github.io/how-to-hub/contributing). BioCommons also have instructions and a template for [writing your own How-to Guide](https://australianbiocommons.github.io/how-to-guide-template/).
 
-1. Please let us know via GitHub [discussions](https://github.com/AustralianBioCommons/how-to-guides/discussions);
-2. Create your own fork of this GitHub repository;
-3. In your fork, create a branch with a concise name, that reflects its contents (e.g. `add/how-to-login-galaxy`);
-4. Use [`guide_template.md`](../guide_template.md) as a starting point to create your own `[guide_name].md`;
-5. Make sure you update the contributors section in the header of `[guide_name].md`, as well as [`CONTRIBUTORS.yml`](_data/CONTRIBUTORS.yml);
-6. Create and commit the edits to your new branch;
-7. Open a GitHub Pull Request (PR) on this repository for your branch, concisely providing context for your additions;
-8. Follow-up on any feedback from the repository maintainers;
-9. Once ready, the maintainers will merge the changes and deploy the new content;
-10. Once deployed, look at your shiny published content [here](https://australianbiocommons.github.io/how-to-guides/)!
-
-
-## Thanks for contributing!
+If you have a suggestion for a new guide that supports the reuse of Galaxy workflows, please [let us know](mailto:[email protected]) 

genome_annotation/Fgenesh.md

@@ -2,8 +2,8 @@
 title: Genome Annotation
 type: genome-annotation
 contributors: [Luke Silver, Anna Syme, Mike Thang, Tiff Nelson]
-description: How-to Guide for Genome Annotation with FgenesH++.
-affiliations: [University of Sydney, Australian BioCommons, Bioplatforms Australia, Galaxy Australia]
+description: How-to Guide for genome annotation with FgenesH++.
+affiliations: [University of Sydney, Australian BioCommons, Bioplatforms Australia, Galaxy Australia, Threatened Species Initiative]
 ---
 
 [Galaxy Australia](https://usegalaxy.org.au/) is capable of conducting genome annotation using the FgenesH++ annotation tool.

genome_annotation/Transcriptome.md

@@ -3,7 +3,7 @@ title: Transcriptome Alignment
 type: genome-annotation
 contributors: [Luke Silver, Anna Syme]
 description: How-to Guide for Transcriptome alignment.
-affiliations: [University of Sydney, Australian BioCommons]
+affiliations: [University of Sydney, Australian BioCommons, Threatened Species Initiative]
 ---
 
 [Galaxy Australia](https://usegalaxy.org.au/) is capable of performing genome repeat masking and transcriptome alignment with stringtie and transdecoder

genome_assembly/assembly_qc.md

@@ -3,7 +3,7 @@ title: Assess the quality of your genome assembly
 type: genome-assembly
 contributors: [Kate Farquharson, Johan Gustafsson, Gareth Price, Simon Tang, Anna Syme]
 description: It is important to assess the quality of a genome assembly, and in the first instance, this quality control (QC) can be achieved using the workflow described here
-affiliations: [Bioplatforms Australia, Galaxy Australia, Australian BioCommons]
+affiliations: [Bioplatforms Australia, Galaxy Australia, Australian BioCommons, Threatened Species Initiative]
 ---
 
 

genome_assembly/hifi_assembly.md

@@ -3,7 +3,7 @@ title: Genome assembly with `hifiasm` on Galaxy Australia
 type: genome-assembly
 contributors: [Gareth Price, Jo Day, Johan Gustafsson, Kate Farquharson]
 description: This guide describes the steps required to assemble your genome on the Galaxy Australia platform using multiple workflows
-affiliations: [Bioplatforms Australia, Galaxy Australia, Australian BioCommons]
+affiliations: [Bioplatforms Australia, Galaxy Australia, Australian BioCommons, Threatened Species Initiative]
 ---
 
 [Galaxy Australia](https://usegalaxy.org.au/) is capable of *de novo* assembling genomes based on PacBio high fidelity reads built from circular consensus sequence HiFi reads.

index.md

@@ -25,10 +25,6 @@ Other guides are available at the BioCommons [How-to Hub](https://australianbioc
 {% include section-navigation-tiles.html type="pop-gen"%}
 
 
-## Contributing
-
-Please see the [contributing instructions](contributing).
-
 
 ## Contributors