Training materials
Authors: Bazante Sanders or Nicola Soranzo or Paul Zierep
and Contributors: Bérénice Batut or Emma Leith or Helena Rasche or Thomas Denecker
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hands-on tutorial
Identification of AMR genes in an assembled bacterial genome
• beginnerWhole genome sequencing Public health and epidemiology Genomics Microbiology Sequence analysis Infectious disease Antimicrobial Resistance Genome Annotation amr gmod illumina jbrowse1 microgalaxy one-health -
hands-on tutorial
Scripting Galaxy using the API and BioBlend
• beginnerSoftware engineering Development in Galaxy jupyter-notebook -
hands-on tutorial
Genome Assembly of MRSA from Oxford Nanopore MinION data (and optionally Illumina data)
• beginnerSequence assembly Whole genome sequencing Public health and epidemiology Genomics Microbiology Antimicrobial Resistance Assembly amr assembly gmod jbrowse1 microgalaxy nanopore -
hands-on tutorial
Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data
• beginnerSequence assembly Whole genome sequencing Public health and epidemiology Genomics Microbiology Assembly assembly illumina microgalaxy -
hands-on tutorial
Reference-based RNA-Seq data analysis
• beginnerTranscriptomics QC bulk collections cyoa drosophila rna-seq -
hands-on tutorial
Hands-on for 'Metatranscriptomics analysis using microbiome RNA-seq data' tutorial
• beginnerMetagenomics metagenomics metatranscriptomics -
hands-on tutorial
Hands-on for 'Metatranscriptomics analysis using microbiome RNA-seq data (short)' tutorial
• beginnerMetagenomics metagenomics metatranscriptomics -
hands-on tutorial
External Authentication
• beginnerGalaxy Server administration authentication -
hands-on tutorial
Galaxy Tool Management with Ephemeris
• beginnerGalaxy Server administration git-gat tools -
hands-on tutorial
Python - Subprocess
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook