Fasten toolkit, for streaming operations on fastq files
☆84Oct 12, 2026Updated 2 weeks ago
Alternatives and similar repositories for fasten
Users that are interested in fasten are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated 2 years ago
- Randomly subsample sequencing reads or alignments☆279Oct 19, 2026Updated 2 weeks ago
- Iterate over minimizers of a DNA sequence☆34Jul 12, 2024Updated 2 years ago
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash, UltraLogLog and ExaLogLog☆23Updated this week
- Fast FASTX parsing and k-mer methods in Rust☆214Oct 6, 2026Updated 3 weeks 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.
- How many distinct k-mers are there in a sequence?☆11Oct 26, 2026Updated last week
- k-mers and the like☆22Oct 18, 2026Updated 2 weeks ago
- Sketch-based surveillance platform☆13Updated this week
- A tool for managing your pores☆10Jul 22, 2026Updated 3 months ago
- Databases for wg/cgMLST analysis with the PN2.0 software☆10May 7, 2026Updated 5 months ago
- Homology-based ANI estimation at unprecedented scales🦀☆25Oct 4, 2026Updated 3 weeks ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 4 months ago
- Cython bindings and Python interface to Opal, a SIMD-accelerated database search aligner.☆11Mar 25, 2026Updated 7 months ago
- Split k-mer analysis – version 2☆109Oct 20, 2026Updated last week
- 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.
- Simple and transparent support for compressed files.☆81Sep 23, 2026Updated last month
- A pairwise sequence aligner written in Rust☆152May 22, 2026Updated 5 months ago
- A minimal copy fastq and fasta reader built for parallel support and paired end processing☆51Oct 22, 2026Updated last week
- Fast and exact gap-affine partial order alignment☆71Oct 22, 2026Updated last week
- Python and Rust library for loading, saving, and manipulating taxonomic trees☆54Updated this week
- Remove human reads from a sequencing run☆53Jun 29, 2026Updated 4 months ago
- Genome size estimation from long read overlaps☆98Sep 8, 2026Updated last month
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆27Sep 12, 2024Updated 2 years ago
- TAXnomic Profile Aggregation and STAndardisation☆43May 2, 2026Updated 6 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Minimal but speedy quality control for nanopore reads in Rust☆139Sep 16, 2024Updated 2 years ago
- ntHash implementation in Rust☆36Jul 12, 2024Updated 2 years ago
- A genomic minhashing implementation in Rust☆100Jul 8, 2026Updated 3 months ago
- FASTA and FASTQ parsing in Rust☆84Mar 14, 2025Updated last year
- seqfu - Sequece Fastx Utilities☆133Oct 13, 2026Updated 2 weeks ago
- Rust coder/decoder for Nucleotide Archival Format (NAF) files.☆10Jan 31, 2025Updated last year
- Tearing through FASTA/Q sequences☆42Updated this week
- Nail is an Alignment Inference tooL☆71Updated this week
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 11 months 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.
- Bacterial Annotation by Learned Representation of Genes☆62Mar 26, 2026Updated 7 months ago
- Shared k-mer content between two genomes☆19Jun 21, 2023Updated 3 years ago
- A curated database of completed assemblies with taxonomy IDs☆53Updated this week
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.☆20Sep 1, 2026Updated 2 months ago
- taxonomic classifier based on the kraken2 algorithms and more☆46Dec 12, 2025Updated 10 months ago
- A minimap2 implementation with binseq inputs☆18Dec 11, 2025Updated 10 months ago