Python3 scripts to manipulate FASTA and FASTQ files
☆73Mar 24, 2025Updated last year
Alternatives and similar repositories for Fastaq
Users that are interested in Fastaq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Assembling the cause of phenotypes and genotypes from NGS data☆29Jun 11, 2020Updated 5 years ago
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 5 years ago
- Finding prophage regions in bacterial genomes using brute force☆22Jan 20, 2023Updated 3 years ago
- de novo virus assembler of Illumina paired reads☆58May 17, 2021Updated 4 years ago
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆25Jul 13, 2023Updated 2 years ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Simple FASTQ quality assessment using Python☆108Feb 24, 2026Updated last month
- µbinfie blog☆19Jul 21, 2025Updated 8 months ago
- A versatile and efficient RNA-Seq read counting tool☆16Mar 30, 2016Updated 10 years ago
- Processing and analysis of data coming from Illumina sequencing machines☆10Mar 14, 2026Updated 3 weeks ago
- Evaluating Nanopore-based bacterial variant calling☆22Jul 23, 2025Updated 8 months ago
- Variant call verification☆16May 12, 2025Updated 10 months ago
- De novo genome assembly and multisample variant calling☆112Mar 28, 2019Updated 7 years ago
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆106Feb 6, 2025Updated last year
- Genome inference from a population reference graph☆96Apr 1, 2025Updated last year
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Annotate your metagenome assemblies☆11Jul 19, 2018Updated 7 years ago
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 6 years ago
- Welcome to Physcraper’s repository! Automatic gene tree updating using the Open Tree of Life.☆13May 13, 2022Updated 3 years ago
- Recombination-free trees☆63Sep 1, 2025Updated 7 months ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆92Mar 30, 2026Updated last week
- AlignerBoost is a generalized software toolkit for boosting Next-Gen sequencing mapping precision using a Bayesian based mapping quality …☆11Mar 1, 2022Updated 4 years ago
- Automatically calculate phylogenetic trees from bacterial core genes☆20May 13, 2025Updated 10 months ago
- Finds SNP sites from a multi-FASTA alignment file☆277Dec 16, 2020Updated 5 years ago
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 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.
- Gordon's Text utils Library☆10Apr 11, 2022Updated 3 years ago
- Hitting associations with k-mers☆44May 14, 2022Updated 3 years ago
- Real-time species-typing visualisation for nanopore data.☆13Apr 11, 2023Updated 2 years ago
- RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.☆14Nov 10, 2025Updated 4 months ago
- ☆18Jun 11, 2024Updated last year
- Order and orientation of complete bacterial genomes☆29Jul 11, 2025Updated 8 months ago
- QC report generator for Hi-C pairs file☆13Sep 14, 2020Updated 5 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Feb 15, 2019Updated 7 years ago
- A genomic minhashing implementation in Rust☆103Jun 17, 2025Updated 9 months ago
- 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.
- Tool for analysing viral diversity from High Throughput Sequencing☆12Nov 20, 2025Updated 4 months ago
- The K-mer Analysis Toolkit (KAT) contains a number of tools that analyse and compare K-mer spectra.☆226Nov 25, 2022Updated 3 years ago
- FAST: Fast Analysis of Sequences Toolbox☆31Oct 18, 2019Updated 6 years ago
- Reconstruction of transmission trees using genomic data☆72Sep 27, 2023Updated 2 years ago
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆214May 14, 2020Updated 5 years ago
- Whole genome core alignments from multiple draft genomes☆13Sep 14, 2016Updated 9 years ago
- Transcript assembly tool using multiple change-point inference to improve 3'UTR annotation☆13Dec 2, 2022Updated 3 years ago