Nate Coraor
Contributions
The following list includes only slides and tutorials where the individual or organisation has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.
Editorial Roles
This contributor has taken on additional responsibilities as an editor for the following topics. They are responsible for ensuring that the content is up to date, accurate, and follows GTN best practices.
Tutorials
- Microbiome / 16S Microbial analysis with Nanopore data 🧐
- Using Galaxy and Managing your Data / JupyterLab in Galaxy 🧐
- Using Galaxy and Managing your Data / SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis 🧐
- Using Galaxy and Managing your Data / RStudio in Galaxy 🧐
- Galaxy Server administration / Customizing the look of Galaxy 🧐
- Galaxy Server administration / Deploying Wireguard for private mesh networking 🧐
- Galaxy Server administration / Enable upload via FTP 🧐
- Galaxy Server administration / Deploying a Beacon v1 in Galaxy 🧐
- Galaxy Server administration / Galaxy Installation with Ansible ✍️ 🧐
- Galaxy Server administration / Server Maintenance: Cleanup, Backup, and Restoration ✍️ 🧐
- Galaxy Server administration / Galaxy Interactive Tools ✍️ 🧐
- Galaxy Server administration / Reference Data with CVMFS 🧐
- Galaxy Server administration / Use Apptainer containers for running Galaxy jobs 🧐
- Galaxy Server administration / Data Libraries 🧐
- Galaxy Server administration / Running Jobs on Remote Resources with Pulsar ✍️ 🧐
- Galaxy Server administration / Ansible 🧐
- Galaxy Server administration / Reference Data with Data Managers 📝 🧐
- Galaxy Server administration / Performant Uploads with TUS 🧐
- Galaxy Server administration / Galaxy Monitoring with gxadmin 🧐
- Galaxy Server administration / External Authentication ✍️ 🧐
- Galaxy Server administration / Customizing the look of Galaxy (Manual) 🧐
- Galaxy Server administration / Distributed Object Storage ✍️ 🧐
- Galaxy Server administration / Mapping Jobs to Destinations using TPV ✍️ 🧐
- Galaxy Server administration / Setting up Celery Workers for Galaxy 🧐
- Galaxy Server administration / Monitoring Galaxy and Pulsar with Sentry 🧐
- Galaxy Server administration / Galaxy Monitoring with Telegraf and Grafana 🧐
- Galaxy Server administration / Reference Data with CVMFS without Ansible 🧐
- Galaxy Server administration / Training Infrastructure as a Service (TIaaS) 🧐
- Galaxy Server administration / Galaxy Tool Management with Ephemeris 🧐
- Galaxy Server administration / Connecting Galaxy to a compute cluster ✍️ 🧐
- Galaxy Server administration / Deploying Tailscale/Headscale for private mesh networking 📝 🧐
- Galaxy Server administration / Upgrading Galaxy 🧐
- Galaxy Server administration / How I learned to stop worrying and love the systemd 📝 ⚙️
- Galaxy Server administration / Galaxy Monitoring with Reports ✍️ 🧐
- Visualisation / Visualisation with Circos 🧐
- Single Cell / Clustering 3K PBMCs with Scanpy 🧐
- Ecology / Species distribution modeling 🧐
- Assembly / Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data 🧐
- Climate / Visualize Climate data with Panoply netCDF viewer 🧐
- Climate / Functionally Assembled Terrestrial Ecosystem Simulator (FATES) with Galaxy Climate JupyterLab 🧐
- Climate / Functionally Assembled Terrestrial Ecosystem Simulator (FATES) 🧐
- Statistics and machine learning / Deep Learning (Part 1) - Feedforward neural networks (FNN) 🧐
- Statistics and machine learning / Introduction to Machine Learning using R 🧐
- Contributing to the Galaxy Training Material / Updating diffs in admin training 🧐
- Foundations of Data Science / R basics in Galaxy 🧐
- Transcriptomics / Whole transcriptome analysis of Arabidopsis thaliana 🧐
- Variant Analysis / Calling variants in non-diploid systems 🧐
- Development in Galaxy / Scripting Galaxy using the API and BioBlend 🧐
- Introduction to Galaxy Analyses / Very Short Introductions: QC 🧐
- Introduction to Galaxy Analyses / From peaks to genes 🧐
- Introduction to Galaxy Analyses / Galaxy Basics for genomics 🧐
- Introduction to Galaxy Analyses / Galaxy Basics for everyone 🧐
Slides
- Galaxy Server administration / Controlling Galaxy with systemd or Supervisor ✍️ 🧐
- Galaxy Server administration / uWSGI ✍️ 🧐
- Galaxy Server administration / Galaxy Installation with Ansible ✍️ 🧐
- Galaxy Server administration / Galaxy Monitoring ✍️ 🧐
- Galaxy Server administration / Gearing towards production ✍️ 🧐
- Galaxy Server administration / Server Maintenance: Cleanup, Backup, and Restoration ✍️ 🧐
- Galaxy Server administration / Galaxy Interactive Tools ✍️
- Galaxy Server administration / Storage Management ✍️
- Galaxy Server administration / Running Jobs on Remote Resources with Pulsar ✍️ 🧐
- Galaxy Server administration / Reference Genomes in Galaxy 🧐
- Galaxy Server administration / Galaxy Monitoring with gxadmin ✍️
- Galaxy Server administration / External Authentication 🧐
- Galaxy Server administration / Advanced customisation of a Galaxy instance 🧐
- Galaxy Server administration / Storage Management ✍️ 🧐
- Galaxy Server administration / Galaxy and Celery 🧐
- Galaxy Server administration / Galactic Database ✍️
- Galaxy Server administration / Galaxy Monitoring with Telegraf and Grafana ✍️
- Galaxy Server administration / User, Role, Group, Quota, and Authentication managment ✍️ 🧐
- Galaxy Server administration / Galaxy Tool Management with Ephemeris 🧐
- Galaxy Server administration / Galaxy Troubleshooting ✍️ 🧐
- Galaxy Server administration / Galaxy from an administrator's point of view ✍️ 🧐
- Galaxy Server administration / Connecting Galaxy to a compute cluster ✍️ 🧐
- Galaxy Server administration / Server: Other ✍️
FAQs
- Define once, reference many times
- Database Issues
- Blank page or no CSS/JavaScript
- Debugging tool errors
- Debugging tool memory errors
- Tool missing from Galaxy
- Galaxy UI is slow
- Launch RStudio
- Mapping Jobs to Specific Storage By User
Video Recordings
Events
- Admin Training @ GCC 2022: Online Training Day 🧑🏫
- 2023 Galaxy Admin Training (Ghent) 🧑🏫
- Galaxy Training Academy 2024 🧑🏫
GitHub Activity
github Issues Reported
44 Merged Pull Requests
See all of the github Pull Requests and github Commits by Nate Coraor.
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Update the admin troubleshooting slides
admin
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Update cluster slides
admin
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Run tusd with gravity
admin
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Update tpv-auto-lint
admin
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Updates to *Installing Galaxy with Ansible*
admin
Reviewed 41 PRs
We love our community reviewing each other's work!
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Very short introductions: QC
introduction
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Update microbiome pURLs
template-and-tools
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add FAQ about upgrading through 22.05
admin
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fix ansible-vault diff
admin
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GAT 2023 Day 3
admintemplate-and-toolsnews
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