don't get DUP'ed or DEL'ed by your putative SVs.
☆108Dec 14, 2020Updated 5 years ago
Alternatives and similar repositories for duphold
Users that are interested in duphold 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 variant calling and genotyping with existing tools, but, smoothly.☆264Jun 17, 2024Updated last year
- Plot structural variant signals from many BAMs and CRAMs☆567Jul 13, 2024Updated last year
- Pipeline for structural variant image curation and analysis.☆49Dec 5, 2021Updated 4 years ago
- Bayesian genotyper for structural variants☆136Apr 13, 2026Updated last month
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Dec 3, 2017Updated 8 years ago
- 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.
- Graph realignment tools for structural variants☆168Dec 8, 2022Updated 3 years ago
- Structural variant (SV) analysis tools☆41Jul 1, 2024Updated last year
- Structural variant toolkit for VCFs☆411Updated this week
- Toolset for SV simulation, comparison and filtering☆417Dec 1, 2023Updated 2 years ago
- sort genomic data☆36Nov 7, 2025Updated 6 months ago
- Support Vector Structural Variation Genotyper☆59May 29, 2020Updated 5 years ago
- igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"☆133Oct 14, 2025Updated 7 months ago
- Toolkit for calling structural variants using short or long reads☆115Updated this week
- Tools for processing and analyzing structural variants.☆157May 2, 2022Updated 4 years 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.
- annotate a VCF with other VCFs/BEDs/tabixed files☆404May 1, 2026Updated 3 weeks ago
- Detect novel (and reference) STR expansions from short-read data☆71Dec 6, 2025Updated 5 months ago
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆51Apr 9, 2021Updated 5 years ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- Structural variant and indel caller for mapped sequencing data☆465Oct 11, 2025Updated 7 months ago
- Structural variant detection and association testing☆109Feb 2, 2023Updated 3 years ago
- Ximmer is a system for CNV calling on exome and targeted genomic sequencing☆19May 9, 2026Updated 2 weeks ago
- (WIP) best-practices workflow for rare disease☆62Jul 1, 2024Updated last year
- genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF☆150Feb 17, 2026Updated 3 months 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.
- goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary☆226Sep 18, 2025Updated 8 months ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆58Feb 17, 2022Updated 4 years ago
- Linear-time, low-memory construction of variation graphs☆20Feb 3, 2020Updated 6 years ago
- Ultra-efficient mapping-free structural variation genotyper☆20Jul 28, 2021Updated 4 years ago
- Jasmine: SV Merging Across Samples☆252Dec 20, 2024Updated last year
- Structural Variant Index☆76Dec 13, 2024Updated last year
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Aug 19, 2022Updated 3 years ago
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆515May 15, 2026Updated last week
- fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"☆314Apr 24, 2026Updated last month
- 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.
- TIDDIT - structural variant calling☆79Mar 22, 2026Updated 2 months ago
- Structural variation and indel detection by local assembly☆255May 14, 2026Updated last week
- Deep learning-based structural variant filtering method