A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads
☆68Nov 4, 2021Updated 4 years ago
Alternatives and similar repositories for reticulatus
Users that are interested in reticulatus are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Long-read mock community experiments☆103Oct 8, 2021Updated 4 years ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆28Sep 7, 2019Updated 7 years ago
- A MinION-based pipeline for tracking species biodiversity☆13Feb 19, 2024Updated 2 years ago
- Sequence-independent identification and removal of adapters/systemic contamination in shotgun sequencing data. https://doi.org/10.1093/bi…☆19Apr 4, 2023Updated 3 years ago
- 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.
- A toolbox for pangenome analysis and threshold evaluation.☆102Jul 8, 2022Updated 4 years ago
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆40Sep 22, 2022Updated 3 years ago
- De novo Extraction of Strains from MetAgeNomes☆72Jun 17, 2020Updated 6 years ago
- ☆14Sep 11, 2023Updated 3 years ago
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆272Oct 13, 2022Updated 3 years ago
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆36Aug 4, 2021Updated 5 years ago
- Real-time species-typing visualisation for nanopore data.☆12Apr 11, 2023Updated 3 years ago
- Read Until client library for Nanopore Sequencing☆108Sep 25, 2024Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Apr 1, 2023Updated 3 years ago
- Get microbial sequence data easier and faster☆29Nov 7, 2019Updated 6 years ago
- Assembly based core genome SNP alignments for bacteria☆25Oct 23, 2019Updated 6 years ago
- An algorithm for recovering haplotypes from metagenomes☆30Jun 29, 2021Updated 5 years ago
- Automated strain separation of low-complexity metagenomes☆52Nov 10, 2021Updated 4 years ago
- Long-read metagenomic analysis☆112Oct 10, 2023Updated 2 years ago
- SquiggleKit: A toolkit for manipulating nanopore signal data☆130Feb 16, 2024Updated 2 years ago
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆49May 14, 2026Updated 4 months ago
- Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure☆183Aug 10, 2026Updated last month
- 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.
- CLI tool for flexible and fast adaptive sampling on ONT sequencers☆198Feb 25, 2026Updated 6 months ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 6 years ago
- Benchmarking of long-read assembly tools for bacterial whole genomes☆172Mar 15, 2021Updated 5 years ago
- A genomic minhashing implementation in Rust☆101Jul 8, 2026Updated 2 months ago
- ☆33Sep 20, 2017Updated 9 years ago
- A message queue for genomic surveillance☆19Oct 14, 2021Updated 4 years ago
- WtP: Phage identification via nextflow and docker or singularity☆107Aug 11, 2026Updated last month
- Error correction of ONT transcript reads☆58Sep 9, 2026Updated last week
- Split Kmer Analysis☆67May 26, 2022Updated 4 years ago
- 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.
- Assemble bacterial isolate genomes from Nanopore reads☆136Jan 22, 2025Updated last year
- Reference-free clustering and consensus forming of long-read amplicon sequencing☆68Updated this week
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆244Dec 29, 2023Updated 2 years ago
- Predict plasmids from uncorrected long read data☆41Feb 27, 2026Updated 6 months ago
- a collection of scripts for organising bacterial genomes by species☆80Mar 18, 2022Updated 4 years ago
- Quantifying the significance of genetic variation using probabilistic profile-based methods.☆19Apr 21, 2021Updated 5 years ago
- kaamer - protein identification based on amino acid kmers☆11Mar 7, 2023Updated 3 years ago