A versatile pairwise aligner for genomic and spliced nucleotide sequences
☆2,183Apr 25, 2026Updated last month
Alternatives and similar repositories for minimap2
Users that are interested in minimap2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,741Mar 22, 2025Updated last year
- De novo assembler for single molecule sequencing reads using repeat graphs☆930Apr 3, 2026Updated last month
- A single molecule sequence assembler for genomes large and small.☆700Feb 24, 2026Updated 3 months ago
- The next version of bwa-mem☆834Oct 15, 2025Updated 7 months ago
- Structural variation caller using third generation sequencing☆654Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Sequence-to-graph mapper and graph generator☆478Aug 11, 2025Updated 9 months ago
- Mummer alignment tool☆558Feb 4, 2025Updated last year
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆775May 15, 2026Updated last week
- Signal-level algorithms for MinION data☆596Aug 5, 2023Updated 2 years ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆309Mar 18, 2024Updated 2 years ago
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆353Jul 19, 2025Updated 10 months ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…☆297May 9, 2024Updated 2 years ago
- Sequence correction provided by ONT Research☆513Apr 8, 2026Updated last month
- Toolkit for processing sequences in FASTA/Q formats☆1,540Jun 1, 2025Updated 11 months ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,361Apr 24, 2026Updated last month
- Plotting scripts for long read sequencing data☆550Mar 17, 2026Updated 2 months ago
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,899May 14, 2026Updated last week
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆530Sep 27, 2023Updated 2 years ago
- Genome assembly evaluation tool☆510Nov 14, 2024Updated last year
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,555Updated this week
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆670Dec 3, 2022Updated 3 years ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆851May 2, 2026Updated 3 weeks ago
- A fast approximate aligner for long DNA sequences☆288Oct 11, 2024Updated last year
- 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.
- tools for working with genome variation graphs☆1,318May 15, 2026Updated last week
- k-mer based assembly evaluation☆343Updated this week
- Tools for fast and flexible genome assembly scaffolding and improvement☆563Feb 14, 2024Updated 2 years ago
- adapter trimmer for Oxford Nanopore reads☆387May 8, 2024Updated 2 years ago
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆250Dec 16, 2025Updated 5 months ago
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆391Apr 22, 2026Updated last month
- Oxford Nanopore's Basecaller☆830Updated this week
- Synteny and Rearrangement Identifier☆468Updated this week
- Long read / genome alignment software☆317Dec 16, 2025Updated 5 months 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.
- hybrid assembly pipeline for bacterial genomes☆641Jul 25, 2024Updated last year
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆273Oct 13, 2022Updated 3 years ago
- ☆286Dec 29, 2025Updated 4 months ago
- Align proteins to genomes with splicing and frameshift☆402Jan 5, 2026Updated 4 months ago
- Data and analysis for NA12878 genome on nanopore☆407Nov 22, 2022Updated 3 years ago
- An accurate GFF3/GTF lift over pipeline☆539Aug 1, 2023Updated 2 years ago
- Fast and accurate de novo assembler for long reads☆402May 10, 2024Updated 2 years ago