Fasten toolkit, for streaming operations on fastq files
☆81Oct 24, 2025Updated 5 months 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:
- Fast FASTX parsing and k-mer methods in Rust☆210Jan 27, 2026Updated last month
- k-mers and the like☆22Mar 2, 2026Updated 3 weeks ago
- Iterate over minimizers of a DNA sequence☆32Jul 12, 2024Updated last year
- Randomly subsample sequencing reads or alignments☆255Mar 16, 2026Updated last week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Feb 27, 2026Updated 3 weeks ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆63Updated this week
- TAXnomic Profile Aggregation and STAndardisation☆42Nov 18, 2025Updated 4 months ago
- HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors☆30Aug 26, 2024Updated last year
- ☆19Feb 15, 2025Updated last year
- ntHash implementation in Rust☆36Jul 12, 2024Updated last year
- A genomic minhashing implementation in Rust☆103Jun 17, 2025Updated 9 months ago
- Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing libra…☆15Feb 27, 2024Updated 2 years ago
- Split k-mer analysis – version 2☆104Jan 29, 2026Updated last month
- Genome size estimation from long read overlaps☆81Mar 9, 2026Updated 2 weeks ago
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash and UltraLogLog☆20Jan 22, 2026Updated 2 months ago
- FASTA and FASTQ parsing in Rust☆83Mar 14, 2025Updated last year
- UPHL's Reference Free Pipeline☆27Updated this week
- A taxonomic classifier of plasmids☆29Jul 7, 2021Updated 4 years ago
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- A minimal copy fastq and fasta reader built for parallel support and paired end processing☆42Jan 9, 2026Updated 2 months ago
- Fast and exact gap-affine partial order alignment☆59Feb 3, 2026Updated last month
- Rust coder/decoder for Nucleotide Archival Format (NAF) files.☆10Jan 31, 2025Updated last year
- Drug Resistance Prediction with Reference Graphs☆21Oct 23, 2025Updated 5 months ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆26Sep 12, 2024Updated last year
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- A curated database of completed assemblies with taxonomy IDs☆51Feb 25, 2026Updated 3 weeks ago
- Sketch-based surveillance platform☆14Dec 17, 2024Updated last year
- Rapid & standardized genome annotation using protein structural information☆43Updated this week
- A lightweight platform-accelerated library for biological motif scanning using position weight matrices.☆62Feb 26, 2026Updated 3 weeks ago
- Bioinformatics 101 tool for counting unique k-length substrings in DNA☆33Feb 17, 2026Updated last month
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆29Aug 20, 2025Updated 7 months ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆241Oct 12, 2025Updated 5 months ago
- A Rust library and command line tool for working with genomic ranges and their data.☆100May 29, 2024Updated last year
- A pairwise sequence aligner written in Rust☆152Jan 27, 2026Updated last month
- Colinear block visualisation tool☆31Jan 17, 2024Updated 2 years ago
- bedtools-like functionality for interval sets in rust☆55Aug 5, 2025Updated 7 months ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- A very fast interval tree data structure☆131Feb 3, 2025Updated last year
- bioinformatics toolkit in rust☆101Feb 15, 2026Updated last month