TheiaGenEpi Help Centre

FAQ

• FAQs: CZ GEN EPI Transfer to Theiagen Global Health Initiative (TGHI)
• How can I get support or make a feature request?
• How do I overlay metadata on my Nextstrain tree?
• How do I invite additional users to my group?
• Which pathogens can I investigate through TheiaGenEpi?
• What does ‘private’ mean when selecting privacy status for my samples?

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Get Started

• TheiaGenEpi Demo Video
• Get familiar with Sample page
• Get familiar with Phylogenetic Tree page
• Which phylogenetic analysis tool should I use? UShER vs Nextstrain
• Quick guide to phylogenetic tree type
• TheiaGenEpi overview

Uploading Your Data

• Uploading data
• Troubleshooting guide: Uploading metadata

Search & Filter Your Data

• Filtering data to find samples

Download Your Data

• Download genome sequences and metadata
• Download QC metrics and mutation data
• Download data and upload it into the GISAID data repository
• Download data and submit it to GenBank

Update or Delete Your Data

• Editing metadata
• Troubleshooting guide: Updating metadata
• Deleting samples

Building Nextstrain Trees

• Tree Building Updates (09/06/2024)
• GISAID to GenBank Transition
• Understand phylogenetic tree types
• Understand on-demand phylogenetic tree sample composition
• Access automatic trees
• Build on-demand trees

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Running UShER Phylogenetic Placements

• What is UShER and when do I use it?
• Phylogenetic Analysis: UShER

Sending Trees to Galago

• Getting Started & FAQ
• Glossary & Methods

Privacy & Data Sharing

• Where can I view the Privacy Policy & ToS?
• Who else can see my sample data?
• Will you ever share the genomic data or public health impacts of the data?
• Which service providers do you use?
• Do you use cookies?
• Why do you use cookies?

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Group & Account Management

• Request a TheiaGenEpi account