Metagenomics Workshop SciLifeLab
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  • Introduction
  • Connecting to UPPMAX
  • Checking required software
  • Quality Control
  • Community analysis using 16S reads
  • Metagenomic Assembly
  • Annotation
    • Functional Annotation
    • Taxonomic annotation
    • Mapping reads and quantifying genes
    • Summarize and explore the annotation
Metagenomics Workshop SciLifeLab
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  • Annotation
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AnnotationΒΆ

Here you will learn how to annotate your assemblies.

  • Functional Annotation
    • PROKKA
    • Predicting metabolic pathways using MinPath
  • Taxonomic annotation
    • DIAMOND
    • MEGAN
    • Krona
  • Mapping reads and quantifying genes
    • Overview
    • Mapping reads with bowtie2
    • Removing duplicates
    • Counting mapped reads per gene
    • Normalizing to Transcripts Per Million (TPM)
  • Summarize and explore the annotation
    • KRONA interactive plots
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© Copyright 2014, Johannes Alneberg, John Sundh, Ino de Bruijn, Luisa Hugerth, Anders Andersson. Revision ac59a5ee.

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