shotgun

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nf-core / taxprofiler

Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data

workflow bioinformatics nanopore pipeline nextflow shotgun pathogen metagenomics classification profiling microbiome illumina long-reads taxonomic-classification nf-core taxonomic-profiling

Updated Jan 23, 2025
Nextflow

nf-core / detaxizer

Star

A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Removal is optional.

workflow nanopore pipeline nextflow shotgun filter metagenomics edna microbiome fastq metabarcoding long-reads taxonomic-classification de-identification nf-core short-reads taxonomic-profiling decontamination

Updated Jan 20, 2025
Nextflow

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