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The Top 23 Metabarcoding Open Source Projects

Open source projects categorized as Metabarcoding
Categories > Metabarcoding
Vsearch ⭐ 605
Versatile open-source tool for microbiome analysis
total releases 1most recent commit 5 months ago
Dada2 ⭐ 428
Accurate sample inference from amplicon data with single nucleotide resolution
most recent commit 5 months ago
Ampliseq ⭐ 141
Amplicon sequencing analysis workflow using DADA2 and QIIME2
most recent commit 5 months ago
Decontam ⭐ 122
Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
most recent commit a year ago
Metacoder ⭐ 121
Parsing, Manipulation, and Visualization of Metabarcoding/Taxonomic data
most recent commit a year ago
Swarm ⭐ 110
A robust and fast clustering method for amplicon-based studies
most recent commit 5 months ago
Pr2database ⭐ 57
Protist Ribosomal Reference database (PR2) - SSU rRNA gene database
most recent commit a year ago
Barque ⭐ 25
Environmental DNA metabarcoding taxonomic identification
most recent commit 5 months ago
Boldigger ⭐ 24
A python package to query different databases of boldsystems.org
dependent packages 1total releases 46most recent commit 10 months agopypi boldigger} Downloads
Jamp ⭐ 24
JAMP - Just Another Metabarcoding Pipeline
most recent commit 2 years ago
Primerminer ⭐ 22
R mased batch sequence downloader, with primer development and in silico evaluation capabilities
most recent commit 5 years ago
Co1classifier ⭐ 22
This repository contains CO1 reference sets that can be used with the RDP Classifier, BLAST, or SINTAX to classify COI metabarcode sequences.
most recent commit a year ago
Dadaist2 ⭐ 11
Dadaist2 🟨 Highway to R
most recent commit a year ago
Samba ⭐ 10
Standardized and Automated MetaBarcoding Analyses workflow (Mirror)
most recent commit a year ago
Pewo ⭐ 10
Phylogenetic Placement Evaluation Workflows : Benchmark placement software and different reference trees
most recent commit 2 years ago
Metabar ⭐ 9
metabaR is an R package to curate and visualise DNA metabarcoding data after basic bioinformatics analyses.
most recent commit a year ago
Meta Barcoding Dual Indexing ⭐ 9
Increased efficiency in identifying mixed pollen samples by meta-barcoding with a dual-indexing approach - Computational methods
most recent commit 2 years ago
Rappas ⭐ 9
Rapid, Alignment-free, Phylogenetic Placement via Ancestral Sequences
most recent commit 6 months ago
Miscmetabar ⭐ 7
R package MiscMetabar: Miscellaneous functions for metabarcoding analysis
most recent commit 5 months ago
Bcdatabaser ⭐ 6
A pipeline to create reference databases for arbitrary markers and taxonomic groups from NCBI data
most recent commit 3 years ago
R_tutorials ⭐ 6
Tutorials for R
most recent commit 3 years ago
Nextits ⭐ 5
A pipeline for metabarcoding fungi and other eukaryotes with full-length ITS sequenced with PacBio
most recent commit 6 months ago
Edna_metabarcoding ⭐ 5
Pipeline to analyze eDNA metabarcoding samples (PE and SE, demultiplexed, multiplexed)
most recent commit 2 years ago
The 2 Latest Releases In Metabarcoding Open Source Projects
Boldigger ⭐ 24
A python package to query different databases of boldsystems.org
dependent packages 1total releases 46latest release August 15, 2023most recent commit 10 months agopypi boldigger} Downloads
Vsearch ⭐ 605
Versatile open-source tool for microbiome analysis
total releases 1latest release March 03, 2021most recent commit 5 months ago
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