Structural variant and indel caller for mapped sequencing data
☆468Oct 11, 2025Updated 10 months ago
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☆394Apr 20, 2026Updated 4 months ago
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆535Updated this week
- lumpy: a general probabilistic framework for structural variant discovery☆346Feb 22, 2026Updated 6 months ago
- Structural variation and indel detection by local assembly☆258Aug 19, 2026Updated 2 weeks ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆286May 21, 2025Updated 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.
- Toolset for SV simulation, comparison and filtering☆425Dec 1, 2023Updated 2 years ago
- structural variant calling and genotyping with existing tools, but, smoothly.☆267Jun 17, 2024Updated 2 years ago
- Canvas - Copy number variant (CNV) calling from DNA sequencing data☆129Apr 20, 2026Updated 4 months ago
- Annotation and Ranking of Structural Variation☆311Aug 11, 2026Updated 3 weeks ago
- don't get DUP'ed or DEL'ed by your putative SVs.☆109Dec 14, 2020Updated 5 years ago
- Haplotype VCF comparison tools☆472Dec 7, 2023Updated 2 years ago
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆178Aug 22, 2024Updated 2 years ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆875May 2, 2026Updated 4 months ago
- Jasmine: SV Merging Across Samples☆259Dec 20, 2024Updated last year
- 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.
- Plot structural variant signals from many BAMs and CRAMs☆572Jul 13, 2024Updated 2 years ago
- Copy number variant detection from targeted DNA sequencing☆616Aug 18, 2026Updated 3 weeks ago
- Structural variant toolkit for VCFs☆422May 22, 2026Updated 3 months ago
- A flexible framework for rapid genome analysis and interpretation☆320Oct 18, 2022Updated 3 years ago
- Tools for processing and analyzing structural variants.☆157May 2, 2022Updated 4 years ago
- Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …☆178Jan 7, 2020Updated 6 years ago
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆420May 25, 2026Updated 3 months ago
- Graph realignment tools for structural variants☆171Dec 8, 2022Updated 3 years ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆99Apr 20, 2026Updated 4 months 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.
- The next version of bwa-mem☆861Oct 15, 2025Updated 10 months ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆338May 27, 2025Updated last year
- Bayesian genotyper for structural variants☆136Apr 13, 2026Updated 4 months ago
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆167Mar 28, 2023Updated 3 years ago
- VarDict☆205Jan 5, 2024Updated 2 years ago
- a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads☆217Jun 23, 2026Updated 2 months ago
- Microassembly based somatic variant caller for NGS data☆154Jun 23, 2022Updated 4 years ago
- Tools for working with SAM/BAM data☆614Dec 22, 2024Updated last year
- Bayesian haplotype-based mutation calling☆326Feb 13, 2026Updated 6 months 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.
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆877Updated this week
- Structural variation caller using third generation sequencing☆678Updated this week
- a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads☆236Feb 17, 2022Updated 4 years ago
- The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants☆570Updated this week
- Official code repository for GATK versions 4 and up☆1,995Updated this week
- annotate a VCF with other VCFs/BEDs/tabixed files☆404Jun 16, 2026Updated 2 months ago
- Tools for the analysis of structural variation in genomes☆81Feb 23, 2026Updated 6 months ago