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MitchobMitchob
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updating community page to include tiles
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‎_includes/section-navigation-tiles_mod.html‎

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{%- assign pages_to_add_as_tiles = site.pages -%}
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<div class="page-tiles">
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<div class="page-tiles-container">
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<div class="page-tiles-list">
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<div class="page-tiles-list" style="--tile-cols: {{ include.col | default: 4 }};">
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{%- for page in pages_to_add_as_tiles -%}
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{%- if page.type == include.type %}
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<a href="{{ page.url | relative_url }}" class="page-tile-link">
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.page-tiles-list {
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display: grid;
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grid-template-columns: repeat(auto-fill, minmax(300px, 1fr));
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grid-template-columns: repeat(var(--tile-cols, 4), 1fr);
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gap: 20px;
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}
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@media (max-width: 992px) {
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.page-tiles-list {
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grid-template-columns: repeat(2, 1fr);
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}
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}
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@media (max-width: 600px) {
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.page-tiles-list {
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grid-template-columns: repeat(1, 1fr);
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}
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}
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.page-tile-link {
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text-decoration: none;
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color: inherit;

‎_templates/research-tile-template.md‎

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---
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title: "<Project name>"
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type: "BioShell Research"
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description: "<Researcher> — <Affiliation>"
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---
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**Researcher:** <Researcher name>
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**Affiliation:** <Institution/affiliation>
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**Project:** <Project name>
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<1-2 sentence summary of the research project and how BioShell was used.>
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<!-- Optional: link to a resulting publication or dataset, if one exists.
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[**View publication**](https://doi.org/<DOI>) -->
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<!--
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HOW TO USE THIS TEMPLATE
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1. Copy this file into pages/community/research/ and rename it to
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<short-slug>.md (the basename becomes the page URL, so keep it unique across the
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whole site).
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2. Fill in the project name, researcher, affiliation, and summary above.
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3. Delete this comment block.
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The tile on the community page is generated automatically from any page with
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type: "BioShell Research" — no need to edit community.md itself.
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-->

‎_templates/training-tile-template.md‎

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---
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title: "WORKSHOP: <Workshop title>"
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type: "BioShell Training"
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description: "<Authors> (<Year>)"
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---
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> <Authors>. (<Year>). **WORKSHOP: <Workshop title>**. Zenodo.
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> https://doi.org/<DOI>
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[**View training materials on Zenodo**](https://doi.org/<DOI>)
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<!--
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HOW TO USE THIS TEMPLATE
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1. Copy this file into pages/community/training/ and rename it to
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<year>-workshop-<short-slug>.md (the basename becomes the page URL, so keep it unique
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across the whole site).
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2. Fill in the title, description, authors, year, and DOI above.
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3. Delete this comment block.
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The tile on the community page is generated automatically from any page with
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type: "BioShell Training" — no need to edit community.md itself.
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-->

‎pages/community.md‎

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The following workshops have been delivered using BioShell as the computational environment.
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All training materials are openly available via Zenodo.
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{% include callout.html type="note" content="All BioShell training events are coordinated by the Australian BioCommons Training Team. Visit [biocommons.org.au/event-support](https://www.biocommons.org.au/event-support) to find out how to run a BioShell-powered workshop at your institution." %}
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{% include section-navigation-tiles_mod.html type="BioShell Training" col="4" %}
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### 2026
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> Willet C, Geaghan M, Gagalova K, Antczak M, Samaha G, O'Brien M. (2026). **WORKSHOP:
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> Unlocking nf-core: customising workflows for your research**. Zenodo.
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> https://doi.org/10.5281/zenodo.20453332
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> Williams S. (2026). **WORKSHOP: Spatial omics sampler**. Zenodo.
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> https://doi.org/10.5281/zenodo.18795925
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### 2025
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> Jaya F, Williams S, O'Brien MJ, Matigian N, Thind AS, Wang C, Mori G. (2025).
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> **WORKSHOP: Spatial omics**. Zenodo.
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> https://doi.org/10.5281/zenodo.18168944
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> Jaya F, Geaghan M, Xue W, Antczak M, Gauthier M-E, Beecroft S, O'Brien M, et al.
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> (2025). **WORKSHOP: Nextflow for the life sciences**. Zenodo.
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> https://doi.org/10.5281/zenodo.16791039
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### 2024
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> Stuart K, Samaha G, Barugahare A, Miller S, Deshpande N, Lu C-Y. (2024). **WORKSHOP:
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> Genetic Outlier Analysis**. Zenodo.
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> https://doi.org/10.5281/zenodo.14676276
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### 2023
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> Samaha G, Deshpande N, Lu C-Y, Chung J, Stott A, Ip A. (2023). **WORKSHOP: RNASeq:
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> reads to differential genes and pathways**. Zenodo.
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> https://doi.org/10.5281/zenodo.10045628
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> Samaha G, Willet C, Hakkaart C, Beecroft S, Stott A, Ip A, Cooke S. (2023).
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> **WORKSHOP: Unlocking nf-core: customising workflows for your research**. Zenodo.
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> https://doi.org/10.5281/zenodo.8026170
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## Research outcomes {#research}
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BioShell has supported research projects across a range of molecular life sciences
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disciplines. This section highlights projects that have used BioShell as part of their
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research.
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## Research outcomes {#research}
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{% include section-navigation-tiles_mod.html type="BioShell Research" col="4" %}
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[AUTHOR TO SUPPLY — add publications or datasets that used BioShell. Include DOI where
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available.]
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‎pages/community/training/2023-workshop-nf-core.md‎

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---
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title: "Unlocking nf-core: customising workflows for your research"
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type: "BioShell Training"
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description: "Samaha G, Willet C, Hakkaart C, Beecroft S, Stott A, Ip A, Cooke S (2023)"
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---
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> Samaha G, Willet C, Hakkaart C, Beecroft S, Stott A, Ip A, Cooke S. (2023).
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> **WORKSHOP: Unlocking nf-core: customising workflows for your research**. Zenodo.
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> https://doi.org/10.5281/zenodo.8026170
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[**View training materials on Zenodo**](https://doi.org/10.5281/zenodo.8026170)

‎pages/community/training/2023-workshop-rnaseq.md‎

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---
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title: "RNASeq: reads to differential genes and pathways"
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type: "BioShell Training"
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description: "Samaha G, Deshpande N, Lu C-Y, Chung J, Stott A, Ip A (2023)"
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---
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> Samaha G, Deshpande N, Lu C-Y, Chung J, Stott A, Ip A. (2023). **WORKSHOP: RNASeq:
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> reads to differential genes and pathways**. Zenodo.
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> https://doi.org/10.5281/zenodo.10045628
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[**View training materials on Zenodo**](https://doi.org/10.5281/zenodo.10045628)

‎pages/community/training/2024-workshop-genetic-outlier-analysis.md‎

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---
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title: "Genetic Outlier Analysis"
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type: "BioShell Training"
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description: "Stuart K, Samaha G, Barugahare A, Miller S, Deshpande N, Lu C-Y (2024)"
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---
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> Stuart K, Samaha G, Barugahare A, Miller S, Deshpande N, Lu C-Y. (2024). **WORKSHOP:
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> Genetic Outlier Analysis**. Zenodo.
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> https://doi.org/10.5281/zenodo.14676276
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[**View training materials on Zenodo**](https://doi.org/10.5281/zenodo.14676276)

‎pages/community/training/2025-workshop-nextflow-life-sciences.md‎

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---
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title: "Nextflow for the life sciences"
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type: "BioShell Training"
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description: "Jaya F, Geaghan M, Xue W, Antczak M, Gauthier M-E, Beecroft S, O'Brien M, et al (2025)"
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---
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> Jaya F, Geaghan M, Xue W, Antczak M, Gauthier M-E, Beecroft S, O'Brien M, et al.
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> (2025). **WORKSHOP: Nextflow for the life sciences**. Zenodo.
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> https://doi.org/10.5281/zenodo.16791039
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[**View training materials on Zenodo**](https://doi.org/10.5281/zenodo.16791039)

‎pages/community/training/2025-workshop-spatial-omics.md‎

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---
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title: "Spatial omics"
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type: "BioShell Training"
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description: "Jaya F, Williams S, O'Brien MJ, Matigian N, Thind AS, Wang C, Mori G (2025)"
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---
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> Jaya F, Williams S, O'Brien MJ, Matigian N, Thind AS, Wang C, Mori G. (2025).
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> **WORKSHOP: Spatial omics**. Zenodo.
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> https://doi.org/10.5281/zenodo.18168944
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[**View training materials on Zenodo**](https://doi.org/10.5281/zenodo.18168944)

‎pages/community/training/2026-workshop-nf-core.md‎

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---
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title: "Unlocking nf-core: customising workflows for your research"
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type: "BioShell Training"
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description: "Willet C, Geaghan M, Gagalova K, Antczak M, Samaha G, O'Brien M (2026)"
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---
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> Willet C, Geaghan M, Gagalova K, Antczak M, Samaha G, O'Brien M. (2026). **WORKSHOP:
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> Unlocking nf-core: customising workflows for your research**. Zenodo.
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> https://doi.org/10.5281/zenodo.20453332
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[**View training materials on Zenodo**](https://doi.org/10.5281/zenodo.20453332)

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