Strain-level abundances estimation in metagenomic samples using variation graphs
☆24Jan 29, 2023Updated 3 years ago
Alternatives and similar repositories for StrainFLAIR
Users that are interested in StrainFLAIR are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- MetaSNV, a metagenomic SNV calling pipeline.☆21Mar 25, 2022Updated 4 years ago
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- StrainEst - abundance estimation of strains☆20Jan 17, 2020Updated 6 years ago
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆208Sep 22, 2023Updated 2 years ago
- snapper☆13Jul 8, 2024Updated last year
- 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.
- frame-shift correction for long-read (meta)genomics☆33Dec 11, 2023Updated 2 years ago
- CAMITAX: Taxon labels for microbial genomes☆31Dec 14, 2023Updated 2 years ago
- Strain Resolution ON Graphs☆50Jul 18, 2023Updated 2 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆46Oct 3, 2023Updated 2 years ago
- Dadaist2 🟨 Highway to R☆13Mar 7, 2025Updated last year
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- A method for reconstruction of subspecies composition and functional profiles from metagenomic data☆13May 27, 2024Updated last year
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆54Feb 4, 2026Updated 2 months ago
- A shiny package for microbiome functional enrichment analysis☆39Dec 23, 2025Updated 3 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Bioinformatics program inStrain☆184Mar 12, 2026Updated last month
- Code to create a PRG from a Multiple Sequence Alignment file☆25Sep 10, 2025Updated 7 months ago
- ☆30Sep 21, 2023Updated 2 years ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆70Apr 9, 2024Updated 2 years ago
- strain-level analysis tools☆39Oct 21, 2024Updated last year
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆21Dec 9, 2025Updated 4 months ago
- kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding☆23Aug 23, 2023Updated 2 years ago
- Bioinformatics 101 tool for counting unique k-length substrings in DNA☆33Feb 17, 2026Updated last month
- Viral genome coverage evaluation for metagenomic diagnostics☆27Aug 19, 2025Updated 7 months ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆50Mar 26, 2026Updated 2 weeks ago
- Command line client and Python libraries for CosmosID API☆12Oct 28, 2025Updated 5 months ago
- A nextflow version of the Wochenende reference metagenome binning and visualization pipeline☆16Mar 4, 2026Updated last month
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆54Sep 7, 2025Updated 7 months ago
- genome_updater is a bash script that downloads and updates (non-redundant) snapshots of the NCBI Genomes repository (RefSeq/GenBank) with…☆168Mar 12, 2026Updated last month
- ☆62Sep 15, 2025Updated 6 months ago
- ☆12May 6, 2022Updated 3 years ago
- This is the source code for the "Analysis of Microbiome Community Data in R" ICPP 2018 workshop. The website is available at: https://gr…☆16Nov 30, 2023Updated 2 years ago
- Graph-based assembly phasing☆93Nov 25, 2025Updated 4 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 6 years ago
- Raspir, the rare species identifier☆11Oct 19, 2023Updated 2 years ago
- A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations☆44Apr 4, 2023Updated 3 years ago
- Metagenomics microbial abundance quantification☆28Sep 22, 2022Updated 3 years ago
- tidyMicro GitHup Repository☆21Nov 17, 2021Updated 4 years ago
- Metaphor: a general-purpose workflow for assembly and binning of metagenomes☆40Nov 14, 2025Updated 5 months ago
- High-resolution strain-level microbiome composition analysis tool based on reference genomes and k-mers☆43Apr 8, 2024Updated 2 years ago