M. tuberculosis Bioinformatics Workshop
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Agenda and Lectures’ Slides
Day 1: Unix Shell Refresher for Bioinformatics
Day 2: Microbial Genome Assembly (from short and long reads) and Genome Annotation
Day 3: Read mapping and variant calling
Day 4: Phylogenetics/Phylogenomics and Building Reproducible Computational Pipelines
Datasets
Data Prep and Read QC
Processing and Merging SNVs from multiple isolates to get an MSA
Building Bioinformatics Pipelines with Snakemake
Day 5: Building Reproducible Computational Pipelines
M. tuberculosis Bioinformatics Workshop
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Day 4: Phylogenetics/Phylogenomics and Building Reproducible Computational Pipelines
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Day 4: Phylogenetics/Phylogenomics and Building Reproducible Computational Pipelines
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Datasets
Data Prep and Read QC
Processing and Merging SNVs from multiple isolates to get an MSA
Building Bioinformatics Pipelines with Snakemake
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