Short Read Taxonomy Processes

This section contains processes related to taxonomic classification of short reads.

Process	Description
Bracken	Bracken abundance estimation
Dedup Metaphlan	Deduplicate Metaphlan results
Extract Unclassified Kraken	Extract unclassified Kraken reads
Extract Unclassified Metaphlan	Extract unclassified Metaphlan reads
Extract Unclassified Names	Extract unclassified names
Kraken2	Kraken2 classification
Make Xtree Input	Make Xtree input
Merge Bracken	Merge Bracken results
Merge Metaphlan	Merge Metaphlan results
Merge Xtree Outputs	Merge Xtree outputs
Metaphlan	Metaphlan profiling
Shiny File Process	Process files for Shiny
Standardize Bracken	Standardize Bracken output
Standardize Metaphlan	Standardize Metaphlan output
Standardize Xtree	Standardize Xtree output
Xtree	Xtree classification