Structural Variant Identification Method using Long Reads
☆181Jun 29, 2021Updated 4 years ago
Alternatives and similar repositories for svim
Users that are interested in svim are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Long read based human genomic structural variation detection with cuteSV☆286Mar 26, 2026Updated last month
- Structural variation caller using third generation sequencing☆651Apr 2, 2026Updated last month
- pbsv - PacBio structural variant (SV) calling and analysis tools☆166Feb 26, 2025Updated last year
- 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 r…☆309Mar 18, 2024Updated 2 years ago
- Structural Variant Identification Method using Genome Assemblies☆142Sep 16, 2022Updated 3 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Toolset for SV simulation, comparison and filtering☆416Dec 1, 2023Updated 2 years ago
- SV genotyping with long reads☆40Jul 3, 2023Updated 2 years ago
- Jasmine: SV Merging Across Samples☆251Dec 20, 2024Updated last year
- Structural variant toolkit for VCFs☆407Mar 21, 2026Updated last month
- Long read / genome alignment software☆316Dec 16, 2025Updated 4 months ago
- Plot structural variant signals from many BAMs and CRAMs☆567Jul 13, 2024Updated last year
- Long read aligner☆114May 26, 2023Updated 2 years ago
- diploid SNV caller for error-prone reads☆209Apr 26, 2024Updated 2 years ago
- Clair3 - Symphonizing pileup and full-alignment for deep learning-based long-read variant calling☆358Apr 27, 2026Updated last week
- 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 program to call variants from genome alignment☆83Apr 29, 2025Updated last year
- Structural variant caller for real-time long-read sequencing data☆61Dec 1, 2022Updated 3 years ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 5 years ago
- PEPPER-Margin-DeepVariant☆258Jan 12, 2024Updated 2 years ago
- Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data☆52Feb 3, 2021Updated 5 years ago
- Toolkit for calling structural variants using short or long reads☆115Apr 28, 2026Updated last week
- Sequence-to-graph mapper and graph generator☆477Aug 11, 2025Updated 8 months ago
- Structural variant caller☆55Dec 8, 2021Updated 4 years ago
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆273Oct 13, 2022Updated 3 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- ultrafast structural variation detection from circular consensus sequencing reads☆13Mar 8, 2022Updated 4 years ago
- k-mer based assembly evaluation☆343Jun 28, 2024Updated last year
- SV caller for nanopore data☆92Jun 7, 2020Updated 5 years ago
- Evaluate variant calls and its combination with k-mer multiplicity☆68Dec 2, 2022Updated 3 years ago
- Pipeline to convert a haploid assembly into diploid☆111Jan 23, 2025Updated last year
- Variant calling tool for long-read sequencing data☆117Mar 19, 2025Updated last year
- Structural variant caller for low-depth long-read sequencing data☆30Jan 6, 2025Updated last year
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆109Jun 6, 2021Updated 4 years ago
- VarIant SimulatOR for short, long and linked reads☆54Oct 21, 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.
- Archived version 1.0.2☆16Nov 25, 2019Updated 6 years ago
- lumpy: a general probabilistic framework for structural variant discovery☆342Feb 22, 2026Updated 2 months ago
- Yet another k-mer analyzer☆169Dec 30, 2025Updated 4 months ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆847Apr 24, 2026Updated last week
- ☆287Dec 29, 2025Updated 4 months ago
- Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data☆115Oct 25, 2021Updated 4 years ago
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆514Feb 26, 2026Updated 2 months ago