Add thread about microgalaxy preprint

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👋 Hello! I'm your friendly social media assistant. Below are the previews of this post:
posts/2025-01-07-microgalaxy-preprint.md

mastodon-eu-freiburg

Our preprint "microGalaxy: A gateway to tools, workflows, and training for accessible, reproducible, and FAIR microbial data analysis" is live! 🎉
📝 Read it here: https://www.biorxiv.org/content/10.1101/2024.12.23.629682v1

Microbiome #FAIRdata (1/16)

🌟 What is microGalaxy? It’s a community-driven platform for microbial data analysis!

🔹 220+ tools
🔹 65+ workflows
🔹 45+ tutorials
Built with FAIR principles to empower microbiology research from genomes to multi-omics.

Learn more below! (2/16)

Here’s a sneak peek of what microGalaxy offers:

🔍 Overview of supported microbial data analysis tasks (e.g., genomics, proteomics, multi-omics) and their outputs.

Reproducibility (3/16)

🔧 Galaxy has been a key player in microbial research. See how microbial-specific studies contribute to its growing impact in this citation trend analysis. (4/16)

🌍 Community-driven innovation! In 2023, we surveyed researchers to uncover key needs in microbial data analysis.

🔹 Targeted tools
🔹 Challenges of Galaxy and non-Galaxy users
🔹 Deployment preferences

Your input shaped microGalaxy! 🙌 (5/16)

⚙️ Always evolving:

(A) Tool availability spans 220+ tool suites across various Galaxy servers.

Heatmap illustrating the availability of microGalaxy tool suites (x-axis) across various Galaxy servers (y-axis), grouped by EDAM topics. Tool suites may appear in multiple clusters, as they can be annotated with several topics. A logarithmic scale is applied for improved visualization.: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-3-a.png (6/16)

(B) Usage trends show increasing adoption of microGalaxy tools over time.

Scatter plots showing the usability of microGalaxy tool suites over the past five years across all Galaxy main servers, categorized by their EDAM operations. The x-axis represents the total number of tool users, while the y-axis also denotes the total number of tool users (potentially correct this redundancy).: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-3-b.png (7/16)

(C) The platform has gradually added hundreds of tools since its inception!

Cumulative number of tools added to Galaxy over time, based on the date of the first commit for each tool suite.: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-3-c.png

The tools and workflows are continuously evolving, driven by community needs. (8/16)

🔧 microGalaxy workflows in action!

65+ ready-to-use workflows streamline complex analyses, from genome reconstruction to multi-omics integration.

Here's how tools are grouped across workflows by EDAM operations:

Reproducibility

Heatmap illustrating the presence of microGalaxy tool suites within the available microGalaxy workflows, grouped by three levels of development. The tool suites are organized based on their corresponding EDAM operations, highlighting the breadth of tools (9/16)

utilized for different workflows.: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-4.png (10/16)

📚 Training is a core focus of microGalaxy!

45+ materials support researchers of all levels bridging the gap between learning and doing! 🧑‍🏫✨

Tools integrated into training contexts, grouped by EDAM operations: (11/16)

Heatmap illustrating the presence of microGalaxy tool suites within the available microGalaxy training materials, grouped by EDAM topics. The tool suites are organized based on their corresponding EDAM operations, highlighting the breadth of tools utilized for different training contexts.: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-5.png (12/16)

🔍 How does microGalaxy compare?

We reviewed 44 microbial data analysis platforms, comparing:
General characteristics (e.g., free/open-source)
Accessibility (e.g., user-friendly interfaces, automatable APIs)
Supported methods (e.g., taxonomy profiling, MAGs, multi-omics)

📊 See Supplementary Table 1 for full comparisons! (13/16)

microGalaxy wouldn’t exist without our amazing global community!

From tool developers to educators, this is a testament to the power of collaboration in bioinformatics.

Big thanks to everyone who made this possible! 🙏

Community #Collaboration (14/16)

🌟 Beyond tools, microGalaxy empowers researchers to tackle global challenges like antimicrobial resistance, biodiversity loss, and food security. 🌱🍎

📝 Read the preprint: https://www.biorxiv.org/content/10.1101/2024.12.23.629682v1 (15/16)

🌐 Explore microGalaxy platform: https://microgalaxy.usegalaxy.eu
👥 Join the microGalaxy community: https://galaxyproject.org/community/sig/microbial
💬 Share your thoughts on Matrix: https://matrix.to/#/#galaxyproject_microGalaxy:gitter.im

Let's build the future of microbial data analysis together! 🤝

@galaxyproject@mstdn.science @bebatut@piaille.fr @bgruening@fosstodon.org @pvanheus@mstdn.science @nsoranzo@mstdn.science (16/16)

linkedin-galaxyproject

Our preprint "microGalaxy: A gateway to tools, workflows, and training for accessible, reproducible, and FAIR microbial data analysis" is live! 🎉
📝 Read it here: https://www.biorxiv.org/content/10.1101/2024.12.23.629682v1

Microbiome #FAIRdata (1/15)

🌟 What is microGalaxy? It’s a community-driven platform for microbial data analysis!

🔹 220+ tools
🔹 65+ workflows
🔹 45+ tutorials
Built with FAIR principles to empower microbiology research from genomes to multi-omics.

Learn more below! (2/15)

Here’s a sneak peek of what microGalaxy offers:

🔍 Overview of supported microbial data analysis tasks (e.g., genomics, proteomics, multi-omics) and their outputs.

Reproducibility (3/15)

🔧 Galaxy has been a key player in microbial research. See how microbial-specific studies contribute to its growing impact in this citation trend analysis. (4/15)

🌍 Community-driven innovation! In 2023, we surveyed researchers to uncover key needs in microbial data analysis.

🔹 Targeted tools
🔹 Challenges of Galaxy and non-Galaxy users
🔹 Deployment preferences

Your input shaped microGalaxy! 🙌 (5/15)

⚙️ Always evolving:

(A) Tool availability spans 220+ tool suites across various Galaxy servers.

Heatmap illustrating the availability of microGalaxy tool suites (x-axis) across various Galaxy servers (y-axis), grouped by EDAM topics. Tool suites may appear in multiple clusters, as they can be annotated with several topics. A logarithmic scale is applied for improved visualization.: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-3-a.png (6/15)

(B) Usage trends show increasing adoption of microGalaxy tools over time.

Scatter plots showing the usability of microGalaxy tool suites over the past five years across all Galaxy main servers, categorized by their EDAM operations. The x-axis represents the total number of tool users, while the y-axis also denotes the total number of tool users (potentially correct this redundancy).: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-3-b.png (7/15)

(C) The platform has gradually added hundreds of tools since its inception!

Cumulative number of tools added to Galaxy over time, based on the date of the first commit for each tool suite.: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-3-c.png

The tools and workflows are continuously evolving, driven by community needs. (8/15)

🔧 microGalaxy workflows in action!

65+ ready-to-use workflows streamline complex analyses, from genome reconstruction to multi-omics integration.

Here's how tools are grouped across workflows by EDAM operations:

Reproducibility

Heatmap illustrating the presence of microGalaxy tool suites within the available microGalaxy workflows, grouped by three levels of development. The tool suites are organized based on their corresponding EDAM operations, highlighting the breadth of tools utilized for different workflows.: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-4.png (9/15)

📚 Training is a core focus of microGalaxy!

45+ materials support researchers of all levels bridging the gap between learning and doing! 🧑‍🏫✨

Tools integrated into training contexts, grouped by EDAM operations: (10/15)

Heatmap illustrating the presence of microGalaxy tool suites within the available microGalaxy training materials, grouped by EDAM topics. The tool suites are organized based on their corresponding EDAM operations, highlighting the breadth of tools utilized for different training contexts.: https://raw.githubusercontent.com/usegalaxy-eu/galaxy-social/2025-01-07-microgalaxy-preprint/posts/images/2025-01-07-microgalaxy-preprint-supp-figure-5.png (11/15)

🔍 How does microGalaxy compare?

We reviewed 44 microbial data analysis platforms, comparing:
General characteristics (e.g., free/open-source)
Accessibility (e.g., user-friendly interfaces, automatable APIs)
Supported methods (e.g., taxonomy profiling, MAGs, multi-omics)

📊 See Supplementary Table 1 for full comparisons! (12/15)

microGalaxy wouldn’t exist without our amazing global community!

From tool developers to educators, this is a testament to the power of collaboration in bioinformatics.

Big thanks to everyone who made this possible! 🙏

Community #Collaboration (13/15)

🌟 Beyond tools, microGalaxy empowers researchers to tackle global challenges like antimicrobial resistance, biodiversity loss, and food security. 🌱🍎

📝 Read the preprint: https://www.biorxiv.org/content/10.1101/2024.12.23.629682v1 (14/15)

🌐 Explore microGalaxy platform: https://microgalaxy.usegalaxy.eu
👥 Join the microGalaxy community: https://galaxyproject.org/community/sig/microbial
💬 Share your thoughts on Matrix: https://matrix.to/#/#galaxyproject_microGalaxy:gitter.im

Let's build the future of microbial data analysis together! 🤝 (15/15)

matrix-eu-announce

Our preprint "microGalaxy: A gateway to tools, workflows, and training for accessible, reproducible, and FAIR microbial data analysis" is live! 🎉
📝 Read it here: https://www.biorxiv.org/content/10.1101/2024.12.23.629682v1

Microbiome `#FAIRdata`

🌟 What is microGalaxy? It’s a community-driven platform for microbial data analysis!

🔹 220+ tools 🔹 65+ workflows 🔹 45+ tutorials Built with FAIR principles to empower microbiology research from genomes to multi-omics.

Learn more below!

Here’s a sneak peek of what microGalaxy offers:

🔍 Overview of supported microbial data analysis tasks (e.g., genomics, proteomics, multi-omics) and their outputs.

Reproducibility

🔧 Galaxy has been a key player in microbial research. See how microbial-specific studies contribute to its growing impact in this citation trend analysis.

🌍 Community-driven innovation! In 2023, we surveyed researchers to uncover key needs in microbial data analysis.

🔹 Targeted tools 🔹 Challenges of Galaxy and non-Galaxy users 🔹 Deployment preferences

Your input shaped microGalaxy! 🙌

⚙️ Always evolving:

(A) Tool availability spans 220+ tool suites across various Galaxy servers.

Heatmap illustrating the availability of microGalaxy tool suites (x-axis) across various Galaxy servers (y-axis), grouped by EDAM topics. Tool suites may appear in multiple clusters, as they can be annotated with several topics. A logarithmic scale is applied for improved visualization.

(B) Usage trends show increasing adoption of microGalaxy tools over time.

Scatter plots showing the usability of microGalaxy tool suites over the past five years across all Galaxy main servers, categorized by their EDAM operations. The x-axis represents the total number of tool users, while the y-axis also denotes the total number of tool users (potentially correct this redundancy).

(C) The platform has gradually added hundreds of tools since its inception!

Cumulative number of tools added to Galaxy over time, based on the date of the first commit for each tool suite.

The tools and workflows are continuously evolving, driven by community needs.

🔧 microGalaxy workflows in action!

65+ ready-to-use workflows streamline complex analyses, from genome reconstruction to multi-omics integration.

Here's how tools are grouped across workflows by EDAM operations:

Reproducibility

Heatmap illustrating the presence of microGalaxy tool suites within the available microGalaxy workflows, grouped by three levels of development. The tool suites are organized based on their corresponding EDAM operations, highlighting the breadth of tools utilized for different workflows.

📚 Training is a core focus of microGalaxy!

45+ materials support researchers of all levels bridging the gap between learning and doing! 🧑‍🏫✨

Tools integrated into training contexts, grouped by EDAM operations:

Heatmap illustrating the presence of microGalaxy tool suites within the available microGalaxy training materials, grouped by EDAM topics. The tool suites are organized based on their corresponding EDAM operations, highlighting the breadth of tools utilized for different training contexts.

🔍 How does microGalaxy compare?

We reviewed 44 microbial data analysis platforms, comparing:

General characteristics (e.g., free/open-source)
Accessibility (e.g., user-friendly interfaces, automatable APIs)
Supported methods (e.g., taxonomy profiling, MAGs, multi-omics)

📊 See Supplementary Table 1 for full comparisons!

microGalaxy wouldn’t exist without our amazing global community!

From tool developers to educators, this is a testament to the power of collaboration in bioinformatics.

Big thanks to everyone who made this possible! 🙏

Community `#Collaboration`

🌟 Beyond tools, microGalaxy empowers researchers to tackle global challenges like antimicrobial resistance, biodiversity loss, and food security. 🌱🍎

📝 Read the preprint: https://www.biorxiv.org/content/10.1101/2024.12.23.629682v1

🌐 Explore microGalaxy platform: https://microgalaxy.usegalaxy.eu 👥 Join the microGalaxy community: https://galaxyproject.org/community/sig/microbial 💬 Share your thoughts on Matrix: https://matrix.to/#/#galaxyproject_microGalaxy:gitter.im

Let's build the future of microbial data analysis together! 🤝