Toolkit for processing sequences in FASTA/Q formats
☆1,534Jun 1, 2025Updated 10 months ago
Alternatives and similar repositories for seqtk
Users that are interested in seqtk 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 cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,536Mar 31, 2026Updated last week
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,319Mar 30, 2026Updated last week
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,153Feb 13, 2026Updated last month
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,725Mar 22, 2025Updated last year
- BWK awk modified for biological data☆639Aug 11, 2022Updated 3 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,437Mar 28, 2026Updated last week
- bedtools - the swiss army knife for genome arithmetic☆1,027Mar 11, 2025Updated last year
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,873Mar 26, 2026Updated last week
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆834Apr 1, 2026Updated last week
- A single molecule sequence assembler for genomes large and small.☆699Feb 24, 2026Updated last month
- Accelerated BLAST compatible local sequence aligner.☆1,278Mar 28, 2026Updated last week
- De novo assembler for single molecule sequencing reads using repeat graphs☆912Updated this week
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,056Mar 24, 2026Updated 2 weeks ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆864Feb 8, 2026Updated 2 months ago
- NordVPN Special Discount Offer • AdSave on top-rated NordVPN 1 or 2-year plans with secure browsing, privacy protection, and support for for all major platforms.
- Cutadapt removes adapter sequences from sequencing reads☆576Mar 30, 2026Updated last week
- SRA Tools☆1,324Updated this week
- A quality control analysis tool for high throughput sequencing data☆591Mar 20, 2026Updated 2 weeks ago
- A fast multi-threaded k-mer counter☆532Mar 20, 2024Updated 2 years ago
- Mummer alignment tool☆554Feb 4, 2025Updated last year
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more☆468Mar 15, 2026Updated 3 weeks ago
- The next version of bwa-mem☆826Oct 15, 2025Updated 5 months ago
- The second version of the Kraken taxonomic sequence classification system☆890Apr 1, 2026Updated last week
- Tools for working with SAM/BAM data☆609Dec 22, 2024Updated last year
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Sequence correction provided by ONT Research☆503Dec 8, 2025Updated 4 months ago
- Pilon is an automated genome assembly improvement and variant detection tool☆380Apr 10, 2022Updated 3 years ago
- Genome assembly evaluation tool☆508Nov 14, 2024Updated last year
- Fast genome-wide functional annotation through orthology assignment☆716Mar 24, 2026Updated 2 weeks ago
- Scripts to download genomes from the NCBI FTP servers☆1,070Updated this week
- RNA-seq aligner☆2,174Mar 18, 2025Updated last year
- SPAdes Genome Assembler☆921Mar 17, 2026Updated 3 weeks ago
- Tools for handling Unique Molecular Identifiers in NGS data sets☆543Mar 2, 2026Updated last month
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆668Dec 3, 2022Updated 3 years ago
- Wordpress hosting with auto-scaling on Cloudways • AdFully Managed hosting built for WordPress-powered businesses that need reliable, auto-scalable hosting. Cloudways SafeUpdates now available.
- A fast and sensitive gapped read aligner☆785Mar 7, 2026Updated last month
- A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…☆544Feb 24, 2026Updated last month
- hybrid assembly pipeline for bacterial genomes☆635Jul 25, 2024Updated last year
- BEDOPS: high-performance genomic feature operations☆365Apr 29, 2025Updated 11 months ago
- Official code repository for GATK versions 4 and up☆1,928Updated this week
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆268Mar 15, 2026Updated 3 weeks ago
- Tools to process and analyze deep sequencing data.☆753Jul 23, 2025Updated 8 months ago