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 reads that span structural variations
☆310Mar 18, 2024Updated 2 years ago
Alternatives and similar repositories for ngmlr
Users that are interested in ngmlr are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Structural variation caller using third generation sequencing☆660May 18, 2026Updated 3 weeks ago
- Long read aligner☆114May 26, 2023Updated 3 years ago
- Structural Variant Identification Method using Long Reads☆182Jun 29, 2021Updated 4 years ago
- SV caller for nanopore data☆92Jun 7, 2020Updated 6 years ago
- Long read based human genomic structural variation detection with cuteSV☆289Mar 26, 2026Updated 2 months ago
- 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.
- Toolset for SV simulation, comparison and filtering☆420Dec 1, 2023Updated 2 years ago
- Structural Variants Pipeline for Long Reads☆45Jul 17, 2018Updated 7 years ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,197May 19, 2026Updated 3 weeks ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…☆298May 9, 2024Updated 2 years ago
- A fast approximate aligner for long DNA sequences☆288Oct 11, 2024Updated last year
- Long read / genome alignment software☆322Dec 16, 2025Updated 5 months ago
- diploid SNV caller for error-prone reads☆210Apr 26, 2024Updated 2 years ago
- A single molecule sequence assembler for genomes large and small.☆701Jun 3, 2026Updated last week
- ☆288Dec 29, 2025Updated 5 months 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.
- pbsv - PacBio structural variant (SV) calling and analysis tools☆166Feb 26, 2025Updated last year
- Sequence-to-graph mapper and graph generator☆481Aug 11, 2025Updated 10 months ago
- A program to call variants from genome alignment☆83Apr 29, 2025Updated last year
- Structural variant toolkit for VCFs☆414May 22, 2026Updated 3 weeks ago
- [IMPORTANT: not for real data analysis, only for algorithm evaluation] fast and accurate alignment tool for PacBio and Nanopore long read…☆125Sep 10, 2018Updated 7 years ago
- A method for variant graph genotyping based on exact alignment of k-mers☆87Apr 1, 2019Updated 7 years ago
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆273Oct 13, 2022Updated 3 years ago
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆174May 30, 2021Updated 5 years ago
- Plot structural variant signals from many BAMs and CRAMs☆567Jul 13, 2024Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- A genome browser designed for complex structural variants and long reads.☆303Jun 6, 2025Updated last year
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆249Dec 16, 2025Updated 5 months ago
- De novo assembler for single molecule sequencing reads using repeat graphs☆937Apr 3, 2026Updated 2 months ago
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆530Sep 27, 2023Updated 2 years ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 5 years ago
- lumpy: a general probabilistic framework for structural variant discovery☆342Feb 22, 2026Updated 3 months ago
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆354Jul 19, 2025Updated 10 months ago
- Clair3 - Symphonizing pileup and full-alignment for deep learning-based long-read variant calling☆369Updated this week
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆109Jun 6, 2021Updated 5 years 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.
- software tools for haplotype assembly from sequence data☆233Feb 9, 2025Updated last year
- Signal-level algorithms for MinION data☆597Aug 5, 2023Updated 2 years ago
- Fast and accurately polish the genome generated by long reads.☆243Jan 9, 2025Updated last year
- Plotting scripts for long read sequencing data☆554May 29, 2026Updated 2 weeks ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆183Jul 30, 2019Updated 6 years ago
- Tools for the analysis of structural variation in genomes☆81Feb 23, 2026Updated 3 months ago
- k-mer based assembly evaluation☆343May 21, 2026Updated 3 weeks ago