A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
☆1,597Sep 24, 2026Updated 2 weeks ago
Alternatives and similar repositories for seqkit
Users that are interested in seqkit are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Toolkit for processing sequences in FASTA/Q formats☆1,564Jun 1, 2025Updated last year
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,436Updated this week
- A cross-platform, efficient and practical CSV/TSV toolkit in Golang☆1,172Sep 24, 2026Updated 2 weeks ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,254May 19, 2026Updated 4 months ago
- A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV☆480Jul 15, 2026Updated 2 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,492Oct 2, 2026Updated last week
- Mummer alignment tool☆575Feb 4, 2025Updated last year
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆878May 2, 2026Updated 5 months ago
- A grammar of graphics for comparative genomics☆790Updated this week
- bedtools - the swiss army knife for genome arithmetic☆1,054Jun 10, 2026Updated 3 months ago
- Fast genome-wide functional annotation through orthology assignment☆791Aug 13, 2026Updated last month
- SPAdes Genome Assembler☆963Updated this week
- Accelerated BLAST compatible local sequence aligner.☆1,327Sep 29, 2026Updated last week
- Scripts to download genomes from the NCBI FTP servers☆1,089Apr 7, 2026Updated 6 months ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,769Aug 7, 2026Updated 2 months ago
- MMseqs2: ultra fast and sensitive search and clustering suite☆2,150Sep 30, 2026Updated last week
- The next version of bwa-mem☆862Oct 15, 2025Updated 11 months ago
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more☆502Jul 7, 2026Updated 3 months ago
- An accurate GFF3/GTF lift over pipeline☆559Aug 1, 2023Updated 3 years ago
- Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/☆588Sep 7, 2026Updated last month
- Tools for working with SAM/BAM data☆613Dec 22, 2024Updated last year
- De novo assembler for single molecule sequencing reads using repeat graphs☆952Apr 3, 2026Updated 6 months ago
- Phylogenetic orthology inference for comparative genomics☆874Jul 15, 2025Updated 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.
- Fast Whole-Genome Similarity (ANI) Estimation☆481Sep 14, 2026Updated 3 weeks ago
- LexicMap: efficient sequence alignment against millions of prokaryotic genomes☆226Updated this week
- Structural variation caller using third generation sequencing☆684Sep 10, 2026Updated last month
- Read alignment statistics for metagenomics☆406Sep 23, 2026Updated 2 weeks ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆264May 13, 2026Updated 4 months ago
- Ultra-fast and memory-efficient (meta-)genome assembler☆725Oct 28, 2025Updated 11 months ago
- BWK awk modified for biological data☆644Aug 11, 2022Updated 4 years ago
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆678Jul 7, 2026Updated 3 months ago
- Python library to facilitate genome assembly, annotation, and comparative genomics☆932Sep 19, 2026Updated 3 weeks ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Align proteins to genomes with splicing and frameshift☆421Jan 5, 2026Updated 9 months ago
- a python package for fast random access to sequences from plain and gzipped FASTA/Q files☆296Jun 10, 2026Updated 4 months ago
- Randomly subsample sequencing reads or alignments☆274Oct 1, 2026Updated last week
- Official code repository for GATK versions 4 and up☆2,004Updated this week
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆683Aug 7, 2026Updated 2 months ago
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,965Updated this week
- Tools for fast and flexible genome assembly scaffolding and improvement☆576Oct 1, 2026Updated last week