An algorithm for recovering haplotypes from metagenomes
☆30Jun 29, 2021Updated 5 years ago
Alternatives and similar repositories for gretel
Users that are interested in gretel 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 graph-inspired data structure for determining likely chains of sequences from breadcrumbs of evidence☆17Jun 29, 2021Updated 5 years ago
- De novo Extraction of Strains from MetAgeNomes☆72Jun 17, 2020Updated 6 years ago
- Strain resolved metagenome simulator☆13Aug 11, 2018Updated 7 years ago
- MetagenOmic read Re-Assigner and abundance quantifier☆21Jun 24, 2026Updated last month
- Automated strain separation of low-complexity metagenomes☆52Nov 10, 2021Updated 4 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.
- ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs☆37Oct 24, 2025Updated 9 months ago
- PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium☆14Apr 5, 2025Updated last year
- A genomic minhashing implementation in Rust☆103Jul 8, 2026Updated last month
- Strain-level haplotyping for metagenomes with short or long-reads.☆69Apr 10, 2025Updated last year
- Paired reads mapping on de Bruijn graph☆13Jan 15, 2019Updated 7 years ago
- Extract lineage CSVs from NCBI for use with sourmash lca.☆29Oct 4, 2023Updated 2 years ago
- Improving genome bins through the combination of different binning programs☆31Jan 30, 2023Updated 3 years ago
- Automated optimisation of de-novo transcriptome assembly☆25Nov 11, 2015Updated 10 years ago
- pyRforest: A comprehensive R package for genomic data analysis featuring scikit-learn Random Forests in R☆14Aug 20, 2024Updated 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.
- recompute GFA link overlaps☆26Sep 14, 2022Updated 3 years ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆57Mar 13, 2025Updated last year
- A method for reconstruction of subspecies composition and functional profiles from metagenomic data☆13May 27, 2024Updated 2 years ago
- Paint genomes with taxa-specific k-mer probabilities☆16Apr 4, 2022Updated 4 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆30Jun 13, 2023Updated 3 years ago
- Indexing & querying large assembly graphs -- in space, no one can hear you miao!☆120Jan 29, 2026Updated 6 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆65Jun 16, 2025Updated last year
- PanPA is a tool for building panproteome graphs and aligning sequences back to the graphs.☆19Apr 9, 2026Updated 4 months ago
- kaamer - protein identification based on amino acid kmers☆11Mar 7, 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.
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- Ruby library for handling GFA files☆17Jul 10, 2025Updated last year
- Snakemake template for building reusable and scalable machine learning pipelines with mikropml☆13Feb 26, 2025Updated last year
- Metagenomic profiling and phylogenetic distances via common kmers☆42Jul 12, 2021Updated 5 years ago
- Benchmarking of long-read assembly tools for bacterial whole genomes☆172Mar 15, 2021Updated 5 years ago
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- Visualization tool for (meta)genome assembly graphs☆50Updated this week
- QuasiModo: Assessing viral genomic analysis methods on HCMV strain mixture☆12Sep 22, 2022Updated 3 years ago
- Metalign: efficient alignment-based metagenomic profiling via containment min hash☆32Sep 12, 2023Updated 2 years 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.
- ☆12Oct 17, 2017Updated 8 years ago
- a tool for annotation of immunoglobulin genes in genome assemblies☆15Sep 22, 2025Updated 10 months ago
- Neptune: Genomic Signature Discovery☆21May 1, 2026Updated 3 months ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆89Jun 26, 2026Updated last month
- Iterate over minimizers of a DNA sequence☆33Jul 12, 2024Updated 2 years ago
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆68Nov 4, 2021Updated 4 years ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆64May 18, 2020Updated 6 years ago