Versatile open-source tool for microbiome analysis
Accurate sample inference from amplicon data with single nucleotide resolution
Amplicon sequencing analysis workflow using DADA2 and QIIME2
Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
Parsing, Manipulation, and Visualization of Metabarcoding/Taxonomic data
A robust and fast clustering method for amplicon-based studies
Protist Ribosomal Reference database (PR2) - SSU rRNA gene database
R mased batch sequence downloader, with primer development and in silico evaluation capabilities
This repository contains CO1 reference sets that can be used with the RDP Classifier, BLAST, or SINTAX to classify COI metabarcode sequences.
eDNA metabarcoding pipeline
A python package to query different databases of boldsystems.org
CyanoSeq: A curated cyanobacterial 16S rRNA database for next-generation sequencing
R package MiscMetabar: Miscellaneous functions for metabarcoding analysis
A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Removal is optional.
Dadaist2 🟨 Highway to R
metabaR is an R package to curate and visualise DNA metabarcoding data after basic bioinformatics analyses.
Pipeline to analyze eDNA metabarcoding samples (PE and SE, demultiplexed, multiplexed)
Phylogenetic Placement Evaluation Workflows : Benchmark placement software and different reference trees
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