Plugins listed on the old library can be found at old-library.qiime2.org.
QIIME 2 plugin for functional annotation and taxonomic classification of shotgun metagenomes.
Last updated: Thu Feb 26 2026
This is a QIIME2 plugin that annotates sequence data with antimicrobial resistance gene information from CARD.
QIIME 2 plugin for submission of metadata and raw sequence reads to ENA.
Rachis Framework (Formerly Known as QIIME 2 Framework (Q2F))
Last updated: Wed Feb 25 2026
Last updated: Mon Feb 23 2026
QIIME 2 plugin for sequence alignment using minimap2.
Last updated: Fri Feb 20 2026
QIIME2 plugin for quality control analysis of long-read sequences.
QIIME 2 plugin for ANI analysis using skani.
Functions for reproducibly Obtaining and Normalizing Data re-Used from Elsewhere
QIIME 2 plugin for analysis of genomes using GUNC.
QIIME 2 plugin for (meta)genome assembly.
q2-amrfinderplus: QIIME 2 plugin to find acquired antimicrobial resistance genes and point mutations in protein and/or assembled nucleotide sequences with AMRFinderPlus.
REference Sequence annotation and CuRatIon Pipeline
Last updated: Thu Feb 19 2026
Last updated: Fri Feb 06 2026
QIIME 2 plugin supporting operations on feature tables.
Last updated: Thu Feb 05 2026
Support for multiple sequence alignment in QIIME 2.
Last updated: Tue Jan 27 2026
QIIME 2 plugin for machine learning prediction of sample data.
The first choice of wizard lizards for interactive, generalized microbiome data visualization!
Quality filtering for QIIME2
This plugin exists to define integration tests between interfaces and the framework.
QIIME 2 plugin wrapping DADA2
A QIIME 2 plugin for quality control of sequence and feature data
Qiime2 Sourmash Plugin
q2-boots: bootstrapped and rarefaction-based alpha and beta diversity analyses 🥾
QIIME 2 plugin for generating kmers from biological sequences
QIIME 2 plugin supporting taxonomic classification
QIIME 2 plugin for paired sample comparisons
Phylogenetic reconstruction, and operations on phylogenetic trees.
vsearch plugin for QIIME 2
Constrained sparse regression and classification
Last updated: Thu Jan 15 2026
A Qiime plugin for MICOM.
Last updated: Wed Jan 07 2026
genome-sampler: sample viral genomes across time of isolation, location of isolation, and genome divergence.
Last updated: Mon Nov 24 2025
Plugin that converts Conduit metaproteomics results into QIIME 2 artifacts usable in downstream analyses
Last updated: Wed Oct 08 2025
QIIME 2 plugin which contains algorithms for solving General Graphical Lasso (GGLasso) problems
Last updated: Mon Sep 22 2025
QIIME 2 plugin for distribution-based clustering
Last updated: Fri Aug 22 2025
QIIME2 plugin for percentile normalization to correct for batch effects in microbiome case-control studies
q2-fmt is an all-in-one suite for assessing engraftment extent following Fecal Microbiota Transplants!
Last updated: Tue Jul 01 2025
QIIME 2 plugin for PICRUSt2
Last updated: Tue Mar 04 2025
QIIME 2 plugin to contextualize taxonomic abundance data into high-quality metabolic reconstruction of the human gut microbiota
Last updated: Mon Feb 03 2025