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Kraken is a taxanomic sequence classifier that assigns taxonomic labels to short DNA sequences, typically from microbiome or metagenomic studies [1]. Kraken classifies reads to a best-match location in a taxonomic tree (the lowest common ancestor), so not all sequences will be classified to a particular level such as species. Kraken matches k-mers (nucleotide sequences of k bases in length) within a read to a database database of k-mer sequences from known genomes with established taxonomic relationships to perform its classifications.
Running Kraken
Kraken tasks takes FASTQ files as input.
- Click a data node with FASTQ files
- Click the Metagenomics section of the toolbox
- Click Kraken
- Choose a Kraken database
- Configure parameters
- Click Finish to run (Figure 1)
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Overview
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