Description

Build centrifuge database for taxonomic profiling

Input

Name
Description
Pattern

0 ()

1 ()

conversion_table (file)

A tab-separated file with sequence ID to taxonomy ID mapping

*.{map}

taxonomy_tree (file)

A \t|\t-separated file mapping taxonomy. Typically nodes.dmp from the NCBI taxonomy dump. Links taxonomy IDs to their parents

*.{dmp}

name_table (file)

A '|'-separated file mapping taxonomy IDs to a name. Typically names.dmp from the NCBI taxonomy dump. Links taxonomy IDs to their scientific name

*.{dmp}

size_table (file)

Optional list of taxonomic IDs and lengths of the sequences belonging to the same taxonomic IDs.

*

Output

Name
Description
Pattern

0 ()

0 ()

Tools

centrifuge Documentation

Classifier for metagenomic sequences

doi: 10.1101/gr.210641.116License: GPL v3
Authors