SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.
☆26Nov 19, 2025Updated 4 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☆11Nov 2, 2023Updated 2 years ago
- A set of programs for the taxonomic analysis of genetic sequences☆15Jun 12, 2023Updated 2 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☆12Dec 16, 2025Updated 3 months ago
- ☆10Jun 9, 2025Updated 9 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Sparse Cooccurence Network Investigation for Compositional data☆25Feb 1, 2026Updated last month
- ☆15Jan 28, 2026Updated last month
- StrainEst - abundance estimation of strains☆20Jan 17, 2020Updated 6 years 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 2 years ago
- Tool for unsupervised contig binning from viral metagenomes☆17Oct 22, 2021Updated 4 years ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆17Nov 24, 2025Updated 4 months ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 4 years ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆24Feb 6, 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.
- Teaching materials for SymbNET course: from MAGs to GEMs☆14Jan 8, 2024Updated 2 years ago
- MAGinator - Accurate SNV calling and profiling of MAGs☆26May 21, 2025Updated 10 months ago
- Bacterial GWAS analysis☆47Updated this week
- Microbial Phenotype Prediction, successor to PICA, implemented with Python 3.7 and scikit-learn☆12Sep 10, 2021Updated 4 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆54Sep 7, 2025Updated 6 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆27Jul 22, 2024Updated last year
- Scalable creating/updating of metagenome profiling databases☆62Jun 25, 2025Updated 9 months ago
- Metaphor: a general-purpose workflow for assembly and binning of metagenomes☆40Nov 14, 2025Updated 4 months ago
- Useful tricks and tipps for Galaxy users☆12Nov 17, 2022Updated 3 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- HOTSPOT is a hierarchical host prediction tool for plasmid contigs using Transformer.☆10Apr 22, 2024Updated last year
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- A tool to detect RRNPP-type quorum sensing systems☆10Mar 24, 2023Updated 3 years ago
- Code used to analyse and plot metadata of metagenomic binning tools☆14Aug 22, 2024Updated last year
- ☆17May 13, 2025Updated 10 months ago
- ☆17Mar 13, 2026Updated last week
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- Downstream processing of VAMB binning for Viral Elucidation☆54Jul 3, 2024Updated last year
- Pipeline for metabolic annotation of microbial genomes☆150Mar 20, 2025Updated last year
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- ☆81Mar 19, 2026Updated last week
- Plasmid analysis using rearrangement distances☆50Mar 12, 2026Updated 2 weeks ago
- ☆16May 22, 2023Updated 2 years ago
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆227Jan 20, 2026Updated 2 months ago
- Discovery of conserved gene clusters in multiple genomes☆127Jan 16, 2026Updated 2 months ago
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆42Sep 3, 2024Updated last year
- MAGqual is a command line tool to evaluate the quality of metagenomic bins and generate recommended metadata in line with the MIMAG stand…☆15Aug 28, 2024Updated last year