Pipeline for computing OTU tables from 16S or ITS amplicon sequencing data.
☆34Jun 18, 2023Updated 3 years ago
Alternatives and similar repositories for amplicon_sequencing_pipeline
Users that are interested in amplicon_sequencing_pipeline are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Cross-disease comparison of case-control gut microbiome studies☆69Feb 2, 2019Updated 7 years ago
- Pipeline for Illumina shotgun sequencing of 16S rRNA amplicon sequences☆14Sep 2, 2016Updated 10 years ago
- A tool for evaluating RNA seq mapping☆22Jul 12, 2019Updated 7 years ago
- Data and scripts for amplicon pipeline☆27Mar 10, 2019Updated 7 years ago
- High throughput sequencing -- Amplicon sequencing, mainly include 16S, 18S and ITS for microbiome analysis☆15Jan 16, 2023Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.☆466Feb 13, 2026Updated 7 months ago
- Repository of the integrated mouse gut metagenomic catalog☆20Mar 14, 2022Updated 4 years ago
- Code and analysis results for the CRC shotgun meta-analysis☆41Sep 28, 2022Updated 3 years ago
- This repository contains the CWL description of the EBI Metagenomics pipeline☆21Apr 7, 2021Updated 5 years ago
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…☆34Nov 12, 2020Updated 5 years ago
- **DEFUNCT** dada2-based Nextflow pipeline for multiple amplicon data. See website for up-to-date version☆20Nov 1, 2019Updated 6 years ago
- Repository containing scripts and files for 16S gene community analysis chapter in Methods in Molecular Biology☆25May 22, 2019Updated 7 years ago
- de.NBI Nanopore Training Course☆21Jun 13, 2025Updated last year
- A snakemake workflow for metagenomic projects☆15Feb 16, 2023Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- 16S rRNA marker gene upstream and dowstream analysis tutorial for the UCT Hex cluster.☆12Jan 15, 2021Updated 5 years ago
- ViOTUcluster: A high-speed, all-in-one solution that streamlines the entire virome analysis workflow☆26Updated this week
- ☆20Aug 10, 2022Updated 4 years ago
- The aim of this repository is to maintain, refine, and expand the AGORA collection of genome-scale metabolic reconstructions for human gu…☆25Dec 10, 2020Updated 5 years ago
- ☆15Apr 3, 2025Updated last year
- This repository contains scripts used in the manuscript "Massive expansion of human gut bacteriophage diversity"☆20Feb 3, 2021Updated 5 years ago
- ☆12Oct 17, 2017Updated 8 years ago
- Codon Usage Analysis and Prediction of Gene Expressivity☆22Jan 2, 2019Updated 7 years ago
- This is a pipeline for exploring viruses (ssDNA, dsDNA phage, and giant DNA viruses) and viral diversity in metagenomes.☆18Mar 16, 2026Updated 6 months ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- A Port of SparCC by Yonatan Friedman to Python3☆17Feb 14, 2020Updated 6 years ago
- Small pipeline to cluster viral genomes based on their k-mer content. WiP☆21Updated this week
- Code for de novo discovery of viral families in virome data☆16Jun 20, 2024Updated 2 years ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆74Sep 1, 2022Updated 4 years ago
- ☆15May 22, 2025Updated last year
- Bioinformatics tool to find integrons in bacterial genomes☆95May 7, 2025Updated last year
- Metaphor: a general-purpose workflow for assembly and binning of metagenomes☆40Nov 14, 2025Updated 10 months ago
- Extracts fastq reads for specified barcode(s) from one or multiple FASTQ files☆13Jan 31, 2016Updated 10 years ago
- viralComplete: BLAST-based viral completeness verification☆23Oct 4, 2021Updated 4 years ago
- 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.
- Bioinformatics pipeline used in the Laboratory of Viral Metagenomics (KU Leuven) to trim and assemble paired-end Illumina reads, and clas…☆11Nov 6, 2025Updated 10 months ago
- ☆57Mar 14, 2024Updated 2 years ago
- Scripts for stat and plot figures in rice microbiome paper☆30Oct 18, 2024Updated last year
- 宏基因组、代谢组和表型信息关联分析☆11Nov 15, 2018Updated 7 years ago
- A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.☆16Jul 25, 2016Updated 10 years ago
- Real-time species-typing visualisation for nanopore data.☆12Apr 11, 2023Updated 3 years ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School☆69Updated this week