Hugo v0.141.0https://millironx.com/people/moritz-e.-beber/2026-01-25T15:03:25+00:00https://millironx.com/academia/taxprofiler/2023-10-23T00:00:00+00:002023-10-23T00:00:00+00:00Sofia Stamoulihttps://millironx.com/people/sofia-stamouli/Moritz E. Beberhttps://millironx.com/people/moritz-e.-beber/Tanja Normarkhttps://millironx.com/people/tanja-normark/Thomas A. Christensen IIhttps://millironx.com/people/thomas-a.-christensen-ii/Lili Andersson-Lihttps://millironx.com/people/lili-andersson-li/Maxime Borryhttps://millironx.com/people/maxime-borry/Mahwash Jamyhttps://millironx.com/people/mahwash-jamy/Nf-Core Communityhttps://millironx.com/people/nf-core-community/James A. Fellows Yateshttps://millironx.com/people/james-a.-fellows-yates/

Metagenomic classification tackles the problem of characterising the taxonomic source of all DNA sequencing reads in a sample. A common approach to address the differences and biases between the many different taxonomic classification tools is to run metagenomic data through multiple classification tools and databases. This, however, is a very time-consuming task when performed manually - particularly when combined with the appropriate preprocessing of sequencing reads before the classification. Here we present nf-core/taxprofiler, a highly parallelised read-processing and taxonomic classification pipeline. It is designed for the automated and simultaneous classification and/or profiling of both short- and long-read metagenomic sequencing libraries against a 11 taxonomic classifiers and profilers as well as databases within a single pipeline run. Implemented in Nextflow and as part of the nf-core initiative, the pipeline benefits from high levels of scalability and portability, accommodating from small to extremely large projects on a wide range of computing infrastructure. It has been developed following best-practise software development practises and community support to ensure longevity and adaptability of the pipeline, to help keep it up to date with the field of metagenomics.

<p>Metagenomic classification tackles the problem of characterising the taxonomic source of all DNA sequencing reads in a sample. A common approach to address the differences and biases between the many different taxonomic classification tools is to run metagenomic data through multiple classification tools and databases. This, however, is a very time-consuming task when performed manually - particularly when combined with the appropriate preprocessing of sequencing reads before the classification. Here we present nf-core/taxprofiler, a highly parallelised read-processing and taxonomic classification pipeline. It is designed for the automated and simultaneous classification and/or profiling of both short- and long-read metagenomic sequencing libraries against a 11 taxonomic classifiers and profilers as well as databases within a single pipeline run. Implemented in Nextflow and as part of the nf-core initiative, the pipeline benefits from high levels of scalability and portability, accommodating from small to extremely large projects on a wide range of computing infrastructure. It has been developed following best-practise software development practises and community support to ensure longevity and adaptability of the pipeline, to help keep it up to date with the field of metagenomics.</p>