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EI-CoreBioinformatics / annotation-workshop-2026 Public

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Annotation liftover

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swarbred edited this page Feb 16, 2026 · 20 revisions

To add

Wiki pages Pages 24

Home
Annotation liftover
Annotation Web Apollo browser
Augustus
Augustus Extrinsic Configuration and Hints File Formats
Augustus Prediction
Augustus Training (with optimisation)
Augustus Training (without optimisation)
Basic Unix Command Guide
BRAKER3 commands
EVidenceModeler (EVM)
GALBA commands
Guacamole data locations
Guacamole tips
Helixer commands
Long‐read transcript assembly with IsoQuant and StringTie
Mikado commands
Mikado models to Gold standard models
Minos
REAT transcriptome
Software tools used in the workshop
Tiberius commands
Transcript assembly commands
Troubleshooting

Workshop Wiki Home
Basic Unix Command Guide
Transcript assembly commands
- Long-read transcript assembly with IsoQuant and StringTie
- REAT transcriptome commands
Mikado commands
Annotation liftover commands
Augustus
Tiberius commands
Helixer commands
GALBA commands
BRAKER3 commands
Minos commands
EVidenceModeler (EVM) commands
Annotation Web Apollo Browser
Workshop data locations
Software tools used
Guacamole tips
Troubleshooting

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