Training materials
Target audience: Students
and Contributors: Anna Syme or Daniel Neves or Dr. Scooter Morris or Mehmet Tekman or Toby Hodges
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hands-on tutorial
Generating a single cell matrix using Alevin and combining datasets (bash + R)
• beginner10x Single Cell jupyter-notebook paper-replication -
hands-on tutorial
Filter, plot, and explore single cell RNA-seq data with Seurat (R)
• beginner10x R Single Cell jupyter-notebook paper-replication rmarkdown-notebook -
hands-on tutorial
Large genome assembly and polishing
• beginnerSequence assembly Assembly assembly nanopore polishing -
hands-on tutorial
Hands-on for 'Creating the bulk RNA-seq dataset for deconvolution' tutorial
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hands-on tutorial
Hands-on for 'Creating the single-cell RNA-seq reference dataset for deconvolution' tutorial
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hands-on tutorial
Microbial Variant Calling
• beginnerGenetic variation Genomics Sequence assembly DNA polymorphism Microbiology Sequence analysis Variant Analysis gmod jbrowse1 microgalaxy prokaryote -
hands-on tutorial
Genome annotation with Prokka
• beginnerGenomics Microbiology Gene and protein families Sequence analysis Genome Annotation gmod jbrowse1 microgalaxy prokaryote -
hands-on tutorial
Chloroplast genome assembly
• beginnerSequence assembly Assembly jbrowse1 nanopore plants -
hands-on tutorial
VGP assembly pipeline: Step by Step
•• intermediateSequence assembly Assembly VGP eukaryote pacbio -
hands-on tutorial
Hands-on for 'Trajectory Analysis using Python (Jupyter Notebook) in Galaxy' tutorial