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Bracken Abundances

2. Re-estimate kraken2 species abundances using bracken

Taxonomic profiling of whole metagenome shotgun (day 3)

An introduction to the “Tidyverse”

Taxonomic profiling of whole metagenome shotgun (day 2)

Today we will use Braken to recalibrate our estimations, and a set of scripts to merge multiple samples in a single table, and see how to filter it. We will...

Taxonomic profiling of whole metagenome shotgun (day 1)

On our first day we well cover the concepts behind taxonomic classification using Kraken2 (and Bracken), and see how to remove host reads and perform the quality checks (and filtering)....

Metabarcoding workshop (day 3)

From the Command line to R

Metabarcoding workshop (day 2)

Yesterday we introduced the whole workflow to analyze 16S reads, and the powerful framework that Qiime2 introduced that: