Amplicon sequencing analysis workflow using DADA2 and QIIME2
☆256Aug 13, 2026Updated this week
Alternatives and similar repositories for ampliseq
Users that are interested in ampliseq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Assembly and binning of metagenomes☆314Updated this week
- (Meta-)genome screening for functional and natural product gene sequences☆117Aug 7, 2026Updated last week
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆189Updated this week
- Taxonomic Reconstruction and Analysis of NGS Amplicons - A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads…☆22Jun 16, 2026Updated last month
- Accurate sample inference from amplicon data with single nucleotide resolution☆554Jul 31, 2026Updated 2 weeks ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- **DEFUNCT** dada2-based Nextflow pipeline for multiple amplicon data. See website for up-to-date version☆20Nov 1, 2019Updated 6 years ago
- Simple bacterial assembly and annotation pipeline☆92Jul 29, 2026Updated 2 weeks ago
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆46Jul 27, 2026Updated 2 weeks ago
- Import qiime2 artifacts to R☆184Dec 12, 2024Updated last year
- Pipeline to fetch metadata and raw FastQ files from public databases☆199Updated this week
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆54Jun 14, 2025Updated last year
- Pipeline to run qiime2 with snakemake☆18Apr 17, 2020Updated 6 years ago
- A flexible pipeline for complete analysis of bacterial genomes☆522Aug 5, 2026Updated last week
- SourceTracker2☆92Jul 10, 2024Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…☆24Jul 28, 2026Updated 2 weeks ago
- Dadaist2 🟨 Highway to R☆13Mar 7, 2025Updated last year
- bioBakery tools for meta'omic profiling☆322Aug 4, 2026Updated last week
- Analysis pipeline for the identification of viral integration events in genomes using a chimeric read approach.☆18Jul 28, 2026Updated 2 weeks ago
- MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis☆475Jul 28, 2023Updated 3 years ago
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆23May 16, 2026Updated 2 months ago
- ☆66Apr 14, 2026Updated 4 months ago
- Pipeline to generate variant catalogues, a list of variants and their frequencies in a population, from whole genome sequences.☆13Jul 28, 2026Updated 2 weeks ago
- NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads☆117Nov 20, 2023Updated 2 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.
- Network construction, analysis, and comparison for microbial compositional data☆181Jul 7, 2026Updated last month
- HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).☆250Jul 10, 2026Updated last month
- 16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo…☆43Jul 19, 2021Updated 5 years ago
- Speedy versions of phyloseq functions☆48Apr 21, 2024Updated 2 years ago
- An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters☆99Jul 12, 2024Updated 2 years ago
- Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.☆35Updated this week
- MaAsLin2: Microbiome Multivariate Association with Linear Models☆155Feb 5, 2026Updated 6 months ago
- ATLAS - Three commands to start analyzing your metagenome data☆406May 28, 2026Updated 2 months ago
- MaAsLin3: Microbiome Multivariate Association with Linear Models☆85Updated 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.
- A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework☆130Jan 8, 2026Updated 7 months ago
- Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.☆182Jul 22, 2026Updated 3 weeks ago
- Amplicon sequencing variants from 16s ONT R10.4 / HiFi long reads☆51Aug 3, 2026Updated last week
- Code, unit tests, and tutorials for running PICRUSt2☆396Nov 27, 2025Updated 8 months ago
- Assembly and scaffolding of haploid / unphased genomes from long ONT or PacBio HiFi reads☆34Aug 7, 2026Updated last week
- Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing☆128May 12, 2024Updated 2 years ago
- Bioinformatics program inStrain☆191Mar 12, 2026Updated 5 months ago