Training materials
Authors: Bazante Sanders or Dave Clements or Erwan Corre or Frederik Coppens @frcop or Jessica Kirkpatrick krkptrc2@illinois.edu or Mathieu Bourgey or Pratik Jagtap
and Contributors: Bazante Sanders or Dave Clements
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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
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
Hands-on for '16S Microbial Analysis with mothur (extended)' tutorial
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hands-on tutorial
Hands-on for '16S Microbial Analysis with mothur (short)' tutorial
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hands-on tutorial
Python - Subprocess
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook -
hands-on tutorial
Python - Globbing
•• intermediateSoftware engineering Foundations of Data Science jupyter-notebook -
hands-on tutorial
Python - Try & Except
• beginnerSoftware engineering Foundations of Data Science jupyter-notebook -
hands-on tutorial
Make & Snakemake
•• intermediateSoftware engineering Foundations of Data Science -
hands-on tutorial
Python - Files & CSV
• beginnerSoftware engineering Foundations of Data Science jupyter-notebook