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metabarcoding

Here are 17 public repositories matching this topic...

ImagoXV / NanoASV

NanoASV official repo

Updated Mar 12, 2026
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frederic-mahe / mumu

C++ implementation of lulu, a R package for post-clustering curation of metabarcoding data

metabarcoding curation occurrence-matrix

Updated Aug 1, 2026
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nunofonseca / msi

primer docker-image binning metabarcoding adapter-trimming polishing nanopore-analysis-pipeline

Updated Jun 18, 2025
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vaulot / Ribeiro_CARBOM_ISME_2018

Supplementary files for Ribeiro et al. ISME 2018

brazil microbial-communities metabarcoding 18s phytoplankton nifh

Updated Feb 26, 2020
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NRCan / Q2Pipe

Qiime2 based pipeline designed to facilitate and standardise ecological studies by metabarcoding using Illumina Miseq data

metabarcoding dna-processing apptainer

Updated Nov 5, 2025
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marlaux / Metabarcoding-script-by-script

Former version of METAPIPE

workflow pipeline metabarcoding taxonomy-assignment phyloseq demultiplexing otu-table

Updated May 9, 2024
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frederic-mahe / nf-pore2taxa

quick taxonomic assignment of Nanopore metabarding data

bioinformatics nanopore nextflow metagenomics microbiome metabarcoding oxford-nanopore cutadapt amplicon-sequencing occurrence-matrix vsearch long-read-sequencing taxonomic-assignment nextflow-pipeline basecalling metabarcoding-pipeline

Updated Sep 14, 2026
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karubiotools / AnssBin

A tutorials/tool-box for user-friendly bioinformatics and bio-statistics analyses

bioinformatics genomics assembly scripts annotations tutorials biostatistics blast workflows metabarcoding antimicrobial-resistance

Updated Apr 25, 2025
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Grelot / bioinfo_singularity_recipes

A collection of singularity recipies for bioinformatic pipelines.

bioinformatics r singularity edna singularity-container singularity-containers metabarcoding singularity-hub obitools

Updated Jan 20, 2021
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frederic-mahe / swarm-tests

Datasets and scripts to test the amplicon clustering method swarm

testing clustering metabarcoding

Updated Sep 19, 2026
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DavideScarpetta / taxonomic_profiling

Metabarcoding analysis pipeline, using DADA2 and qiime2

bioinformatics bioinformatics-pipeline metabarcoding dada2 cutadapt qiime2 taxonomic-profiling metabarcoding-data

Updated Jan 9, 2024
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gioche96 / milk_microbiota

Repository for pipelines and scripts to analyse microbiota

r pipeline bash-script metabarcoding sheep microbiota goat milk micca

Updated May 29, 2023
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ruben1294 / metabarcoding_ampliseq

Metabarcoding ampliseq: uso de nf-core/ampliseq para realizar metabarcoding. Adaptado para correr local o en HPC.

nextflow metagenomics metabarcoding rrna its microbiome-analysis ampliseq dada2 amplicon-pipeline qiime2 16s-rrna 18s-rrna nextflow-pipeline amplicon-data-analysis 16s-rrna-analysis

Updated Jun 21, 2026
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dougwyu / 300TestTeaching

a teaching script for the DAMe protocol

metabarcoding

Updated Apr 14, 2018
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LuisRodrigoArce-Valdes / PUF-PAS_AirDNA

This repository contains the scripts used on the bioinformatic processing of the "Toward Repurposing Global Passive Air Sampling Networks for Insect Monitoring: Promises and Pitfalls of Airborne eDNA" manuscript.

air edna metabarcoding insects

Updated Sep 17, 2026
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EcoDynIZW / Axtner_2019_GigaScience

"An efficient and robust laboratory workflow and tetrapod database for larger scale environmental DNA studies"

edna metabarcoding idna

Updated Feb 13, 2023
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ffillouxdev / nf-pore2taxa

quick taxonomic assignment of Nanopore metabarding data

bioinformatics nanopore nextflow metabarcoding oxford-nanopore taxonomic-classification amplicon-sequencing sintax dsl2

Updated May 22, 2026
Shell

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