A quick workflow to get researchers started with the bioinformatic pipeline used in the Environmental Metagenomics program.
☆13Feb 17, 2025Updated last year
Alternatives and similar repositories for environmental_metagenomics
Users that are interested in environmental_metagenomics are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Course materials for the Genomics Aotearoa Metagenomics Summer School☆67Updated this week
- ☆20Mar 11, 2024Updated 2 years ago
- Introduction to Ancient Metagenomics Book☆16Sep 20, 2026Updated last month
- Population Genomics in R workshop☆13Mar 24, 2024Updated 2 years ago
- ☆16Aug 1, 2022Updated 4 years 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.
- Parser for Ghost Koala☆10Aug 23, 2018Updated 8 years ago
- Download refseq-genomic data and prepare it for Kraken☆11Jan 20, 2017Updated 9 years ago
- Materials for the STAMPS 2022 course at the MBL in Woods Hole, MA, USA☆22Aug 2, 2022Updated 4 years ago
- ☆12Dec 22, 2025Updated 10 months ago
- A Cloud Pipeline to Analyze Long Read Sequencing Data from Oxford Nanopore and PacBio Sequencers☆12Jan 30, 2023Updated 3 years ago
- This repository contains material to construct pangenome graphs for a small bacteria dataset detailing every step in the Nesi environment…☆11Aug 26, 2026Updated 2 months ago
- A Nextflow full-length 16S profiling pipeline for ONT reads☆27Nov 16, 2023Updated 2 years ago
- Scripts required to calculate tetramer frequencies and create input files for ESOM. See: Dick, G.J., A. Andersson, B.J. Baker, S.S. Simmo…☆17Feb 17, 2022Updated 4 years ago
- filtering SNPs based on LD and HWE status☆10Jul 3, 2023Updated 3 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- AMBER: Assessment of Metagenome BinnERs☆34Jun 23, 2026Updated 4 months ago
- Microbial Phenotype Prediction, successor to PICA, implemented with Python 3.7 and scikit-learn☆13Sep 10, 2021Updated 5 years ago
- A method of assessing sequence complexity based on kmer frequencies☆33Apr 9, 2018Updated 8 years ago
- This repository releases the model weights of ANNA16, an end-to-end tool that predicts 16S rRNA gene copy number (GCN) from 16S rRNA sequ…☆12Oct 28, 2026Updated last week
- ☆65Feb 27, 2024Updated 2 years ago
- Clone of Metasploit's wiki w/ additions☆17Nov 22, 2015Updated 10 years ago
- Transposable Element Finder - Detection of active transposable elements from NGS data☆11Apr 14, 2026Updated 6 months ago
- Detects and blacklists paralog RAD loci analyzed in Stacks or ipyrad, based on the McKinney 2017 method (doi:10.1111/1755-0998.12613)☆10Sep 4, 2019Updated 7 years ago
- Scripts and code for Kākāpō genomic data☆14Sep 4, 2023Updated 3 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.
- Fast and space-efficient taxonomic classification of long reads☆47Jul 16, 2026Updated 3 months ago
- Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes☆199Updated this week
- Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.☆31Feb 3, 2026Updated 9 months ago
- Workflows for metagenomic sequence data processing and analysis.☆16Jul 30, 2019Updated 7 years ago
- ViralCC: leveraging metagenomic proximity-ligation to retrieve complete viral genomes☆19Feb 3, 2026Updated 9 months ago
- ☆17May 22, 2023Updated 3 years ago
- Metadata for Asana API for generating client libraries and documenation☆12Feb 11, 2020Updated 6 years ago
- Pooled Sequencing Analysis for Sex Signal☆15Sep 14, 2021Updated 5 years ago
- A Nextflow pipeline for genome and pan-genome annotation☆17Feb 22, 2026Updated 8 months ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- The snakemake workflow for whole-exome sequencing analysis and generating vcf files☆11Dec 17, 2022Updated 3 years ago
- simulate meta-analysis data☆11Jul 13, 2019Updated 7 years ago
- phylogenetic networks using ggplot2 and ggtree☆12Jun 11, 2026Updated 4 months ago
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…☆33Nov 12, 2020Updated 5 years ago
- A user-friendly tool to screen antimicrobial resistance in fungal genomes☆21May 8, 2026Updated 5 months ago
- Tools for haplotype-wise reconstruction of pseudomolecules☆23Jul 29, 2026Updated 3 months ago
- This repository is for developing and maintaining R companion guides for the EPIET computer tools in outbreak investigation (CTOI) module…☆11Mar 3, 2026Updated 8 months ago