PBSIM3: a simulator for all types of PacBio and ONT long reads
☆101Apr 22, 2025Updated 11 months ago
Alternatives and similar repositories for pbsim3
Users that are interested in pbsim3 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Multiple sequence alignment of long tandem repeats☆26Jan 9, 2026Updated 3 months ago
- ☆39Dec 29, 2025Updated 3 months ago
- Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads☆83Jan 20, 2026Updated 2 months ago
- A complete diploid human genome☆145Mar 27, 2026Updated 3 weeks ago
- Sequence-to-graph mapper and graph generator☆475Aug 11, 2025Updated 8 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.
- a long read simulator that can imitate many types of read problems☆277Jul 22, 2024Updated last year
- PBSIM2: a simulator for long read sequencers with a novel generative model of quality scores☆74Jul 22, 2023Updated 2 years ago
- k-mer based assembly evaluation☆340Jun 28, 2024Updated last year
- ☆286Dec 29, 2025Updated 3 months ago
- Transformer-based sequence correction method for genome assembly polishing☆100Mar 11, 2025Updated last year
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆766Updated this week
- Long read / genome alignment software☆314Dec 16, 2025Updated 4 months ago
- Graphical interactive tool for the visualization of sequence graphs in GFA format.☆74Feb 19, 2019Updated 7 years ago
- Efficient low-divergence mapping of long reads in minimizer space☆69Oct 7, 2023Updated 2 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆136Feb 22, 2026Updated last month
- RepeatIdentifier☆71Mar 19, 2025Updated last year
- ☆62Sep 15, 2025Updated 7 months ago
- bioinformatics toolkit in rust☆103Feb 15, 2026Updated 2 months ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- recompute GFA link overlaps☆25Sep 14, 2022Updated 3 years ago
- Programs implementing the trio-binning genome assembly method☆21Nov 22, 2023Updated 2 years ago
- SRF: Satellite Repeat Finder☆102Jan 8, 2024Updated 2 years ago
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆387Apr 10, 2026Updated last 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.
- ☆31Apr 7, 2025Updated last year
- An accurate aligner of long reads to a variation graph, based on co-linear chaining☆35May 23, 2025Updated 10 months ago
- WFA-lib: Wavefront alignment algorithm library v2☆211Mar 18, 2026Updated last month
- An algorithm for centromere assembly using long error-prone reads☆25May 25, 2021Updated 4 years ago
- Long-read aligner to pangenome graphs☆29May 20, 2024Updated last year
- Python wrapper for wavefront alignment using WFA2-lib☆38Nov 19, 2024Updated last year
- longcallR is a tool for SNP calling, haplotype phasing, and allele-specific analysis with long-read RNA-seq data.☆84Updated this week
- Yet another k-mer analyzer☆167Dec 30, 2025Updated 3 months ago
- LongcallD: joint calling and phasing of small, structural and mosaic variants from long reads☆103Apr 8, 2026Updated last week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Kmer Analysis of Pileups for Genotyping☆38Mar 6, 2026Updated last month
- Tool for assessing/improving assembly quality in extra-long tandem repeats☆48Feb 23, 2021Updated 5 years ago
- convert variation graph alignments to coverage maps over nodes☆27Jan 21, 2026Updated 2 months ago
- A framework for training graph neural networks to untangle assembly graphs obtained from OLC-based de novo genome assemblers.☆52Dec 9, 2025Updated 4 months ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆215Mar 20, 2026Updated last month
- Read-based phasing of genomic variants, also called haplotype assembly☆413Dec 31, 2025Updated 3 months ago
- HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C☆26Jan 14, 2021Updated 5 years ago