metabarcoding

Here are 6 public repositories matching this topic...

nf-core / ampliseq

Amplicon sequencing analysis workflow using DADA2 and QIIME2

Updated Sep 30, 2026
Nextflow

nf-core / detaxizer

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 Oct 1, 2026
Nextflow

ifremer-bioinformatics / samba

Star

Standardized and Automated MetaBarcoding Analyses workflow (Mirror)

workflow pipeline nextflow edna metabarcoding 16s rrna 18s

Updated Jun 28, 2023
Nextflow

bio-raum / BarBeQuE

Star

BARcode BEnchmarking and QUality Evaluation

benchmarking nextflow metabarcoding

Updated Apr 17, 2026
Nextflow

Newgenes1031 / 16S_PacBio_CCS_Metabarcoding_analysis_protocol

Star

This is an easy guide of PacBio 16S metabarcoding analysis for amateur bioinformatician

metabarcoding 16s-rrna pacbio-hifi-sequencing-reads

Updated Jun 25, 2025
Nextflow

Nextflow DSL2 pipeline for Oxford Nanopore 16S rRNA microbiome profiling: quality-aware clustering (isONclust), consensus polishing, BLAST taxonomy against a swappable reference, and Bray-Curtis/PCoA beta diversity.

docker bioinformatics nextflow beta-diversity blast microbiome metabarcoding oxford-nanopore amplicon-sequencing 16s-rrna

Updated Sep 26, 2026
Nextflow

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metabarcoding

Here are 6 public repositories matching this topic...

nf-core / ampliseq

nf-core / detaxizer

ifremer-bioinformatics / samba

bio-raum / BarBeQuE

Newgenes1031 / 16S_PacBio_CCS_Metabarcoding_analysis_protocol

ehill-iolani / 16S-nf

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