Assembly

Lesson Slides Hands-on Recordings Input dataset Workflows
Making sense of a newly assembled genome
gmod prokaryote microgalaxy jbrowse1

Using Galaxy and Managing your Data

Lesson Slides Hands-on Recordings Input dataset Workflows
InterMine integration with Galaxy
gmod intermine

Genome Annotation

Lesson Slides Hands-on Recordings Input dataset Workflows
Bacterial Genome Annotation
gmod illumina bacteria microgalaxy jbrowse1
Genome annotation with Prokka
gmod prokaryote microgalaxy jbrowse1
Identification of AMR genes in an assembled bacterial genome
gmod illumina amr one-health jbrowse1 microgalaxy
Refining Genome Annotations with Apollo (prokaryotes)
gmod prokaryote microgalaxy jbrowse1 biodiversity apollo2
Genome annotation with Funannotate
gmod eukaryote jbrowse1 biodiversity
Genome annotation with Maker (short)
gmod eukaryote maker jbrowse1
Genome annotation with Maker
gmod eukaryote jbrowse1 maker
Refining Genome Annotations with Apollo (eukaryotes)
gmod eukaryote cyoa jbrowse1 apollo2 biodiversity

Sequence analysis

Lesson Slides Hands-on Recordings Input dataset Workflows
SARS-CoV-2 Viral Sample Alignment and Variant Visualization
covid19 gmod jbrowse1

Variant Analysis

Lesson Slides Hands-on Recordings Input dataset Workflows
Microbial Variant Calling
prokaryote microgalaxy gmod jbrowse1

Visualisation

Lesson Slides Hands-on Recordings Input dataset Workflows
Genomic Data Visualisation with JBrowse
gmod jbrowse1