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QC Fail: Per Base Sequence Content
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Metagenomics Taxonomic Classification Using Kraken 2 in OmicsBox
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- 1 Intro
- 2 Metagenomics approaches
- 3 Overview of metagenomics workflow steps
- 4 Questions metagenomics analysis help to answer?
- 5 Case study and study design
- 6 About BioBam
- 7 Exploring OmicsBox
- 8 Downloading metagenomics data
- 9 Performing QC on raw reads using FastQC
- 10 Assessing FastQC report in OmicsBox
- 11 QC Fail: Per Sequence GC Content
- 12 QC Fail: Per Base Sequence Content
- 13 Trimming reads using Trimmomatic
- 14 Assessing Trimmomatic report in OmicsBox
- 15 Post-trimming QC
- 16 Performing Taxonomic classification using Kraken 2
- 17 Exploring Kraken 2 report
- 18 Krona Charts to visualize taxonomic classification
- 19 Principle Coordinate Analysis
- 20 Stacked bar charts to visualize relative abundances of taxa
- 21 Differential Abundance Analysis of taxa
