SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.
☆27Nov 19, 2025Updated 8 months ago
Alternatives and similar repositories for samestr
Users that are interested in samestr are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A repo to reproduce the experiments in the YACHT manuscript☆12Nov 2, 2023Updated 2 years ago
- A set of programs for the taxonomic analysis of genetic sequences☆15Jun 12, 2023Updated 3 years ago
- Ensemble binning strategies for combining the output of multiple binning methods.☆22Mar 11, 2023Updated 3 years ago
- MICROPHERRET: MICRObial PHEnotypic tRait ClassifieR using machine lEarning Techniques☆14Dec 16, 2025Updated 7 months ago
- ☆10Jun 9, 2025Updated last year
- 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.
- Sparse Cooccurence Network Investigation for Compositional data☆26Updated this week
- StrainEst - abundance estimation of strains☆20Jan 17, 2020Updated 6 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆61May 24, 2026Updated 2 months ago
- Plot microbiome time series in parallel☆27Nov 7, 2023Updated 2 years ago
- Gupta et al., TaxiBGC: a Taxonomy-guided Approach for Profiling Experimentally Characterized Microbial Biosynthetic Gene Clusters and Sec…☆15May 24, 2023Updated 3 years ago
- Tool for unsupervised contig binning from viral metagenomes☆18Oct 22, 2021Updated 4 years ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 5 years ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆18Nov 24, 2025Updated 8 months ago
- A tool to detect RRNPP-type quorum sensing systems☆10Mar 24, 2023Updated 3 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.
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆28Feb 6, 2023Updated 3 years ago
- Teaching materials for SymbNET course: from MAGs to GEMs☆15Jan 8, 2024Updated 2 years ago
- ☆16Jan 28, 2026Updated 5 months ago
- MAGinator - Accurate SNV calling and profiling of MAGs☆27Mar 23, 2026Updated 4 months ago
- Microbial Phenotype Prediction, successor to PICA, implemented with Python 3.7 and scikit-learn☆12Sep 10, 2021Updated 4 years ago
- A scalable framework for automatically indexing microbial genomes and accurately characterizing metagenome-assembled genomes with Sequenc…☆15Updated this week
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆26Jul 22, 2024Updated 2 years ago
- Scalable creating/updating of metagenome profiling databases☆62Jun 25, 2025Updated last year
- Metaphor: a general-purpose workflow for assembly and binning of metagenomes☆40Nov 14, 2025Updated 8 months 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.
- Plasmid analysis using rearrangement distances☆56Updated this week
- HOTSPOT is a hierarchical host prediction tool for plasmid contigs using Transformer.☆10Apr 22, 2024Updated 2 years ago
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- Code used to analyse and plot metadata of metagenomic binning tools☆14Aug 22, 2024Updated last year
- ☆56Mar 29, 2026Updated 3 months ago
- Accurate and robust inference of microbial growth dynamics from metagenomic sequencing☆20May 11, 2022Updated 4 years ago
- ☆17Jun 5, 2026Updated last month
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆22Jul 11, 2026Updated 2 weeks ago
- ☆18Jul 11, 2026Updated 2 weeks 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.
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- Downstream processing of VAMB binning for Viral Elucidation☆55Jul 3, 2024Updated 2 years ago
- Pipeline for metabolic annotation of microbial genomes☆150Mar 20, 2025Updated last year
- ☆17May 22, 2023Updated 3 years ago
- A comprehensive prokaryotic genome annotation pipeline☆90Jul 13, 2026Updated last week
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆233Jul 9, 2026Updated 2 weeks ago
- Leviathan: A fast, memory-efficient, and scalable taxonomic and pathway profiler for (pan)genome-resolved metagenomics and metatranscript…☆26Updated this week