Training materials
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bioinformatics-ca/MIC_2021
Metagenomics Microbiology Metagenomics Microbiology
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e-learning
Metagenomics bioinformatics: A practical introduction
Metagenomic sequencing Metagenomics Microbiology Sequence assembly Microbial DNA
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e-learning
MGnify: Quick tour
Metagenomics Metatranscriptomics Microbiology Small molecules Metabolites Metabolome
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e-learning
M. tuberculosis Variant Analysis
•• IntermediateGenetic variation Genomics Microbiology Sequence assembly Public health and epidemiology Infectious disease Variant Analysis microgalaxy one-health prokaryote … -
e-learning
Microbial Variant Calling
• BeginnerGenetic variation Genomics Sequence assembly DNA polymorphism Microbiology Sequence analysis Variant Analysis gmod jbrowse1 microgalaxy … -
e-learning
Calling variants in non-diploid systems
• BeginnerGenetic variation Genomics Sequence assembly DNA polymorphism Microbiology Sequence analysis Variant Analysis microgalaxy prokaryote -
e-learning
Essential genes detection with Transposon insertion sequencing
• BeginnerGenomics Microbiology Sequence analysis Mobile genetic elements Genome Annotation bacteria essential genes microgalaxy tnseq -
e-learning
Refining Genome Annotations with Apollo (prokaryotes)
•• IntermediateGenomics Microbiology Gene and protein families Sequence analysis Genome Annotation apollo2 biodiversity gmod jbrowse1 microgalaxy … -
e-learning
Genome annotation with Prokka
• BeginnerGenomics Microbiology Gene and protein families Sequence analysis Genome Annotation gmod jbrowse1 microgalaxy prokaryote -
e-learning
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 microgalaxy …