Accurate sample inference from amplicon data with single nucleotide resolution
☆543Feb 13, 2026Updated 2 months ago
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…☆644Feb 27, 2026Updated last month
- Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data☆170Sep 4, 2025Updated 7 months ago
- Versatile open-source tool for microbiome analysis☆742Apr 7, 2026Updated last week
- microbiome R package☆314Aug 19, 2025Updated 7 months ago
- Amplicon sequencing analysis workflow using DADA2 and QIIME2☆242Updated this week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Code, unit tests, and tutorials for running PICRUSt2☆385Nov 27, 2025Updated 4 months ago
- Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files☆32Jun 21, 2017Updated 8 years ago
- QIIME 2 plugin wrapping DADA2☆23Jan 27, 2026Updated 2 months ago
- Rachis Framework (Formerly Known as QIIME 2 Framework (Q2F))☆527Mar 27, 2026Updated 2 weeks ago
- ☆43Jul 31, 2017Updated 8 years ago
- An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters☆98Jul 12, 2024Updated last year
- Import qiime2 artifacts to R☆178Dec 12, 2024Updated last year
- Count Regression for Correlated Observations with the Beta-binomial☆107Nov 13, 2025Updated 5 months ago
- Quickly search, compare, and analyze genomic and metagenomic data sets.☆542Apr 7, 2026Updated last week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- An analysis and visualization platform for 'omics data☆512Apr 8, 2026Updated last week
- A robust and fast clustering method for amplicon-based studies☆146Mar 29, 2026Updated 2 weeks ago
- Differential abundance (DA) and correlation analyses for microbial absolute abundance data☆132Mar 14, 2026Updated last month
- A public resource for microbiome bioinformatics benchmarking using artificially constructed (i.e., mock) communities.☆83May 14, 2019Updated 6 years ago
- diversity estimation under ecological networks☆83Jul 29, 2025Updated 8 months ago
- Sparse InversE Covariance estimation for Ecological Association and Statistical Inference☆229Apr 7, 2026Updated last week
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆50Mar 6, 2024Updated 2 years ago
- Prodigal Gene Prediction Software☆532Jan 23, 2024Updated 2 years ago
- Informatic Sequence Classification Trees☆15Jan 23, 2026Updated 2 months 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.
- Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)☆19Oct 23, 2018Updated 7 years ago
- Fast taxonomic classification of metagenomic sequencing reads using a protein reference database☆302Apr 25, 2025Updated 11 months ago
- The second version of the Kraken taxonomic sequence classification system☆889Apr 1, 2026Updated 2 weeks ago
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆588Updated this week
- A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.☆459Feb 13, 2026Updated 2 months ago
- An R package for downstream data analysis of microbiome omics data☆274Updated this week
- R package for community ecologists: popular ordination methods, ecological null models & diversity analysis☆527Updated this week
- Phylogenetic Investigation of Communities by Reconstruction of Unobserved STates (PICRUST): Official repository for software and unit tes…☆92Aug 22, 2025Updated 7 months ago
- R package for microbiome biomarker discovery☆197Feb 19, 2025Updated last year
- 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.
- 🌈 Interactive analysis of metagenomics data☆447Sep 17, 2025Updated 6 months ago
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆406Mar 2, 2026Updated last month
- Interactively explore metagenomes and more from a web browser.☆499Dec 22, 2021Updated 4 years ago
- motus - a tool for marker gene-based OTU (mOTU) profiling☆173Mar 13, 2026Updated last month
- Rapid prokaryotic genome annotation☆971Jan 6, 2026Updated 3 months ago
- Welcome to the mothur project, initiated by Dr. Patrick Schloss and his software development team in the Department of Microbiology & Imm…☆278Jan 13, 2026Updated 3 months ago
- Qiita - A multi-omics databasing effort☆130Apr 8, 2026Updated last week