Snakemake pipeline for simulating shotgun metagenomic samples
☆32Mar 13, 2026Updated 7 months ago
Alternatives and similar repositories for MeSS
Users that are interested in MeSS are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- snakemake-powered cli to download genomes using NCBI datasets☆15Aug 14, 2025Updated last year
- zDB: comparative bacterial genomics made easy☆44Oct 1, 2026Updated last month
- Repository for codes, analyses and visualizations for the CAMI II challenges☆15Sep 4, 2023Updated 3 years ago
- CAMISIM: Simulating metagenomes and microbial communities☆234Jul 16, 2026Updated 3 months ago
- ☆10Jun 9, 2025Updated last year
- 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.
- Lightweight bioinformatics pipeline for microbial genome recovery☆18Oct 23, 2025Updated last year
- A sequencing simulator☆228Oct 22, 2026Updated last week
- QGIS svg icons - Animal silhouettes☆14Nov 17, 2018Updated 7 years ago
- CAMITAX: Taxon labels for microbial genomes☆32Dec 14, 2023Updated 2 years ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆58May 8, 2026Updated 5 months ago
- Ensemble binning strategies for combining the output of multiple binning methods.☆23Mar 11, 2023Updated 3 years ago
- Simulate mutations in genomes☆15Jun 15, 2020Updated 6 years ago
- ☆11Feb 16, 2021Updated 5 years ago
- Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…☆43Updated this week
- 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.
- Perform taxonomic profiling analyses for long-read shotgun metagenomic datasets. Developed for the Long Read Sequencing Workshop 2022 at …☆13May 12, 2022Updated 4 years ago
- ☆16Jul 24, 2026Updated 3 months ago
- Nextflow pipeline designed for rapid onsite QC and variant calling of Oxford Nanopore data (following basecalling and demultiplexing with…☆13Jun 4, 2026Updated 4 months ago
- Recovery of eukaryotic genomes using contrastive learning. A specialized metagenomic binning tool designed for recovering high-quality eu…☆26Oct 20, 2026Updated last week
- Taxonomic Classification of Bacteria and Archaea Genomes☆19Aug 17, 2026Updated 2 months ago
- memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping☆63Jan 22, 2026Updated 9 months ago
- Code used to analyse and plot metadata of metagenomic binning tools☆14Aug 22, 2024Updated 2 years ago
- A easy-to-use Python API for Primer3 primer design.☆17Nov 10, 2022Updated 3 years ago
- kmer-based software for detecting bacterial strain genomes inside metagenomes☆12Dec 11, 2024Updated last year
- 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.
- Metagenome Clustering and Association Tool.☆29Sep 22, 2026Updated last month
- ☆20Oct 19, 2026Updated last week
- Snakemake-based amplicon processing protocol for 16S and ITS sequences.☆13Mar 18, 2024Updated 2 years ago
- R package for network models of HIV and STI transmission: the engine version used in each published paper, by release tag☆25Oct 19, 2026Updated last week
- Assessing the quality of metagenome-derived genome bins using machine learning☆283Mar 20, 2025Updated last year
- Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.☆98Updated this week
- Strain-level abundance analysis tool for short-read metagenomics☆12Jul 12, 2026Updated 3 months ago
- Taxon Set Enrichment Analysis☆12Updated this week
- Cookiecutter profile for making a Snakemake-based bioinformatics tool, but without the fluff☆51Oct 17, 2023Updated 3 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.
- CREST - Classification Resources for Environmnetal Sequence Tags, is a collection of software and databases for taxonomic classification …☆12Mar 20, 2022Updated 4 years ago
- ☆20Nov 18, 2021Updated 4 years ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and give confidences of microbial organisms within short- or long-read…☆84Updated this week
- Phylodynamic inference☆23May 15, 2020Updated 6 years ago
- A genome alignment and visualization system☆10Apr 30, 2024Updated 2 years ago
- Split k-mer analysis – version 2☆109Oct 20, 2026Updated last week
- Fast average nucleotide identity (ANI) calculator for bacterial genomes, MAGs, and contigs. Supports genome comparisons and large-scale d…☆270Oct 14, 2026Updated 2 weeks ago