Structural variant and indel caller for mapped sequencing data
☆467Oct 11, 2025Updated last year
Alternatives and similar repositories for manta
Users that are interested in manta are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Strelka2 germline and somatic small variant caller☆393Apr 20, 2026Updated 6 months ago
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆541Updated this week
- lumpy: a general probabilistic framework for structural variant discovery☆345Feb 22, 2026Updated 8 months ago
- Structural variation and indel detection by local assembly☆258Aug 19, 2026Updated 2 months ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆286May 21, 2025Updated last year
- 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.
- structural variant calling and genotyping with existing tools, but, smoothly.☆266Jun 17, 2024Updated 2 years ago
- Toolset for SV simulation, comparison and filtering☆425Dec 1, 2023Updated 2 years ago
- Canvas - Copy number variant (CNV) calling from DNA sequencing data☆129Apr 20, 2026Updated 6 months ago
- Copy number variant detection from targeted DNA sequencing☆617Oct 15, 2026Updated 3 weeks ago
- Annotation and Ranking of Structural Variation☆310Aug 11, 2026Updated 2 months ago
- don't get DUP'ed or DEL'ed by your putative SVs.☆109Dec 14, 2020Updated 5 years ago
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆420Updated this week
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆98Apr 20, 2026Updated 6 months ago
- Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …☆180Jan 7, 2020Updated 6 years 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.
- Haplotype VCF comparison tools☆474Dec 7, 2023Updated 2 years ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆879Oct 29, 2026Updated last week
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆180Aug 22, 2024Updated 2 years ago
- Plot structural variant signals from many BAMs and CRAMs☆574Jul 13, 2024Updated 2 years ago
- A flexible framework for rapid genome analysis and interpretation☆319Oct 18, 2022Updated 4 years ago
- Tools for processing and analyzing structural variants.☆158May 2, 2022Updated 4 years ago
- Tools for working with SAM/BAM data☆613Dec 22, 2024Updated last year
- Structural variant toolkit for VCFs☆428Oct 3, 2026Updated last month
- Microassembly based somatic variant caller for NGS data☆153Jun 23, 2022Updated 4 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads☆236Feb 17, 2022Updated 4 years ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆339May 27, 2025Updated last year
- Structural variation caller using third generation sequencing☆686Oct 18, 2026Updated 2 weeks ago
- Jasmine: SV Merging Across Samples☆266Dec 20, 2024Updated last year
- a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads☆218Jun 23, 2026Updated 4 months ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆404Jun 16, 2026Updated 4 months ago
- Bayesian haplotype-based mutation calling☆327Feb 13, 2026Updated 8 months ago
- The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants☆579Updated this week
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆166Mar 28, 2023Updated 3 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- The next version of bwa-mem☆868Oct 15, 2025Updated last year
- ASCAT R package☆205Feb 12, 2026Updated 8 months ago
- VarDict☆204Jan 5, 2024Updated 2 years ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆880Sep 3, 2026Updated 2 months ago
- Bayesian genotyper for structural variants☆137Apr 13, 2026Updated 6 months ago
- Graph realignment tools for structural variants☆172Dec 8, 2022Updated 3 years ago
- A tool set for short variant discovery in genetic sequence data.☆207May 4, 2021Updated 5 years ago