Accurate sample inference from amplicon data with single nucleotide resolution
☆558Jul 31, 2026Updated last month
Alternatives and similar repositories for dada2
Users that are interested in dada2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; an…☆652Feb 27, 2026Updated 6 months ago
- Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data☆176Sep 4, 2025Updated last year
- Versatile open-source tool for microbiome analysis☆761Updated this week
- microbiome R package☆319Sep 8, 2026Updated 2 weeks ago
- Amplicon sequencing analysis workflow using DADA2 and QIIME2☆261Updated this week
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters☆100Jul 12, 2024Updated 2 years ago
- Code, unit tests, and tutorials for running PICRUSt2☆398Nov 27, 2025Updated 9 months ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆51Mar 6, 2024Updated 2 years ago
- QIIME 2 plugin wrapping DADA2☆24Jul 21, 2026Updated 2 months ago
- Rachis Framework (Formerly Known as QIIME 2 Framework (Q2F))☆530Updated this week
- A robust and fast clustering method for amplicon-based studies☆150Updated this week
- Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files☆32Jun 21, 2017Updated 9 years ago
- Quickly search, compare, and analyze genomic and metagenomic data sets.☆557Updated this week
- Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)☆19Oct 23, 2018Updated 7 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Import qiime2 artifacts to R☆185Dec 12, 2024Updated last year
- Sparse InversE Covariance estimation for Ecological Association and Statistical Inference☆235Aug 12, 2026Updated last month
- ☆43Jul 31, 2017Updated 9 years ago
- A public resource for microbiome bioinformatics benchmarking using artificially constructed (i.e., mock) communities.☆84May 14, 2019Updated 7 years ago
- A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.☆465Feb 13, 2026Updated 7 months ago
- The second version of the Kraken taxonomic sequence classification system☆940Updated this week
- Prodigal Gene Prediction Software☆553Jan 23, 2024Updated 2 years ago
- R package for community ecologists: popular ordination methods, ecological null models & diversity analysis☆544Updated this week
- Fast taxonomic classification of metagenomic sequencing reads using a protein reference database☆307Updated this week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Count Regression for Correlated Observations with the Beta-binomial☆108Nov 13, 2025Updated 10 months ago
- Differential abundance (DA) and correlation analyses for microbial absolute abundance data☆144Updated this week
- R package for microbiome biomarker discovery☆200Feb 19, 2025Updated last year
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆622Updated this week
- Informatic Sequence Classification Trees☆15Jan 23, 2026Updated 8 months ago
- Rapid prokaryotic genome annotation☆995Jan 6, 2026Updated 8 months ago
- An analysis and visualization platform for 'omics data☆536Updated this week
- diversity estimation under ecological networks☆83Jun 16, 2026Updated 3 months ago
- 🌈 Interactive analysis of metagenomics data☆455Sep 17, 2025Updated last year
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Interactively explore metagenomes and more from a web browser.☆504Dec 22, 2021Updated 4 years ago
- Parsing, Manipulation, and Visualization of Metabarcoding/Taxonomic data☆148Jul 17, 2026Updated 2 months ago
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆411Mar 2, 2026Updated 6 months ago
- REference Sequence annotation and CuRatIon Pipeline☆102Updated this week
- Speedy versions of phyloseq functions☆50Apr 21, 2024Updated 2 years ago
- Welcome to the mothur project, initiated by Dr. Patrick Schloss and his software development team in the Department of Microbiology & Imm…☆281Aug 21, 2026Updated last month
- An R package for downstream data analysis of microbiome omics data☆292Updated this week