SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same species) using genome synteny.
☆40Sep 17, 2025Updated 8 months ago
Alternatives and similar repositories for SynTracker
Users that are interested in SynTracker are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Bioinformatics program inStrain☆186Mar 12, 2026Updated 2 months ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Dec 19, 2022Updated 3 years ago
- Scripts for creating a Kraken database from the Comprehensive Antibiotic Resistance Database☆10Dec 16, 2016Updated 9 years ago
- Plasmid analysis using rearrangement distances☆55May 13, 2026Updated last week
- Nature Communications | BASALT (Binning Across a Series of Assemblies Toolkit) for binning and refinement of short- and long-read sequenc…☆128Updated this week
- 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.
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles☆44Mar 26, 2024Updated 2 years ago
- Compute strain abundance in a defined microbial community☆10Jul 27, 2023Updated 2 years ago
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆167Feb 13, 2026Updated 3 months ago
- nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…☆75May 20, 2022Updated 4 years ago
- Database and pipeline for protein structure-guided annotations of ecologically relevant functions at the metagenome scale.☆27Nov 2, 2025Updated 6 months ago
- Strain Prediction and Analysis with Representative SEquence☆19Dec 8, 2024Updated last year
- A command-line tool for profiling CAZyme abundances in metagenomic datasets.☆36Updated this week
- ☆64Feb 27, 2024Updated 2 years ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆37Feb 26, 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.
- code repo for mobileOG-db☆49Nov 6, 2025Updated 6 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆303Feb 3, 2026Updated 3 months ago
- INC-Seq: Accurate single molecule reads using nanopore sequencing☆16Sep 11, 2020Updated 5 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆56May 17, 2026Updated last week
- ☆77Mar 10, 2024Updated 2 years ago
- From annotated genomes to metabolic screening in large scale microbiotas☆73Apr 27, 2026Updated 3 weeks ago
- HiCBin: binning metagenomic contigs and recovering metagenome-assembled genomes using Hi-C contact maps☆14May 4, 2023Updated 3 years ago
- Colinear block visualisation tool☆31Jan 17, 2024Updated 2 years ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Feb 26, 2020Updated 6 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆47Apr 1, 2025Updated last year
- Pan-genome Analysis☆12May 4, 2025Updated last year
- ☆15Jun 26, 2025Updated 10 months ago
- 将速铂下载工具进行封装，以便高效方便地批量下载SRA测序数据。☆11Sep 1, 2020Updated 5 years ago
- ☆99May 11, 2026Updated last week
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆22Apr 27, 2026Updated 3 weeks ago
- Python3 wrapper for parallelized gene prediction using Prodigal☆11Mar 3, 2023Updated 3 years ago
- ☆11Feb 9, 2024Updated 2 years ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆18Nov 24, 2025Updated 6 months ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆151May 14, 2026Updated last week
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks☆213Updated this week
- Strain resolved metagenome simulator☆13Aug 11, 2018Updated 7 years ago
- A fully featured MinKNOW simulator for testing read until experiments.☆26Apr 28, 2025Updated last year
- Rapid comparison and dereplication of genomes☆341Nov 10, 2025Updated 6 months ago
- Pipeline for identification of eukaryotic contigs in metagenomic assemblies☆13Mar 14, 2024Updated 2 years ago