Strain-level abundance analysis tool for short-read metagenomics
☆12Jul 12, 2026Updated 3 months ago
Alternatives and similar repositories for Strainify
Users that are interested in Strainify are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Lineage-aware Kraken2 refinement for long-read metagenomics☆17Oct 2, 2026Updated 3 weeks ago
- MMUPHin: Meta-analysis Methods with Uniform Pipeline for Heterogeneity in Microbiome Studies☆13Jan 31, 2026Updated 8 months ago
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆54Jun 10, 2026Updated 4 months ago
- exploring viral genome assembly with variation graph tools☆20May 18, 2020Updated 6 years ago
- Ultrafast identification of signature sequences in microbial genomes☆26Updated this week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Iterate over minimizers of a DNA sequence☆34Jul 12, 2024Updated 2 years ago
- TAXnomic Profile Aggregation and STAndardisation☆43May 2, 2026Updated 5 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆71Apr 10, 2025Updated last year
- Strain Resolution ON Graphs☆50Jul 18, 2023Updated 3 years ago
- Taxon Set Enrichment Analysis☆11Sep 21, 2026Updated last month
- Ultra-rapid detection of viral variants directly from sequencing data☆48Sep 16, 2026Updated last month
- Pan-Genomic Matching Statistics☆59Apr 3, 2024Updated 2 years ago
- ☆10Jun 9, 2025Updated last year
- ☆20Sep 16, 2026Updated last month
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Taxonomy manipulation for sylph (new version)☆12Sep 18, 2026Updated last month
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated 2 years ago
- HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NG…☆12Sep 18, 2024Updated 2 years ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆42Apr 6, 2026Updated 6 months ago
- snakemake-powered cli to download genomes using NCBI datasets☆15Aug 14, 2025Updated last year
- Opinionated viral metagenomics workflow☆20Oct 8, 2026Updated 2 weeks ago
- Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets☆25Apr 30, 2026Updated 5 months ago
- Modeling strain-level variation by gene, phylogeny, or pathway☆14Aug 6, 2026Updated 2 months ago
- Population genomics from metagenomes☆13Sep 1, 2024Updated 2 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- ☆14Sep 20, 2026Updated last month
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆43Updated this week
- Alignment-Free Taxonomic Classification Deep Learning Model☆16Apr 8, 2026Updated 6 months ago
- Materials for the STAMPS 2024 course at the MBL in Woods Hole, MA, USA☆13Jul 25, 2024Updated 2 years ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Feb 26, 2020Updated 6 years ago
- Taxonomy classification of viral sequences / contigs☆13Jul 15, 2025Updated last year
- strain-level analysis tools☆40Oct 21, 2024Updated 2 years ago
- Pilea: profiling bacterial growth dynamics from metagenomes with sketching☆13Updated this week
- Robust individual and aggregate checksums for nucleotide sequences☆18Mar 3, 2026Updated 7 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat☆52Jun 6, 2026Updated 4 months ago
- Dadaist2 🟨 Highway to R☆13Mar 7, 2025Updated last year
- Fast, highly accurate, read-trimming for NGS data.☆26Updated this week
- Analysis of the population diversity of SARS-CoV-2 within and between individual patients☆15Apr 30, 2020Updated 6 years ago
- Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…☆43Updated this week
- ViBE: a hierarchical BERT model to identify viruses using metagenome sequencing data☆11Sep 6, 2022Updated 4 years ago
- Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.☆98Oct 7, 2026Updated 2 weeks ago