SVsim: a tool that generates synthetic Structural Variant calls as benchmarks to test/evaluate SV calling pipelines.
☆18Dec 4, 2017Updated 8 years ago
Alternatives and similar repositories for SVsim
Users that are interested in SVsim are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆11Mar 6, 2024Updated 2 years ago
- Simulator for structural variants in various types of next-generation sequencing data☆11Mar 21, 2017Updated 9 years ago
- De-novo Assembly Structural Variant Caller☆13Sep 15, 2016Updated 9 years ago
- Header-only, gzread-like reader for gzip, bz2, and xz.☆11Aug 8, 2018Updated 7 years ago
- Identifying large scale inversions between two genomes by mapping genome 1's unique kmers onto genome 2.☆10Jun 6, 2025Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Simulation toolbox for structural variations.☆10May 30, 2019Updated 7 years ago
- A software for discovery, genotyping and characterization of structural variants☆22Sep 11, 2024Updated last year
- Filtering and profiling of next-generational sequencing data using region-specific rules☆79Oct 30, 2023Updated 2 years ago
- a string to graph aligner☆41Jul 5, 2016Updated 9 years ago
- reference implementation of GA4GH WGS Quality Control Standards☆11Nov 25, 2025Updated 6 months ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆58Feb 17, 2022Updated 4 years ago
- Bayesian genotyper for structural variants☆136Apr 13, 2026Updated last month
- lumpy: a general probabilistic framework for structural variant discovery☆342Feb 22, 2026Updated 3 months ago
- yaha: a flexible, sensitive and accurate DNA alignment tool designed to find optimal split-read mappings on single-end queries from 100bp…☆20Dec 6, 2017Updated 8 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Dec 3, 2017Updated 8 years ago
- TIDDIT - structural variant calling☆79Mar 22, 2026Updated 2 months ago
- Gene lists related to cancer immunotherapy☆14Sep 11, 2024Updated last year
- Post Assembly Variants Finder☆18Mar 24, 2026Updated 2 months ago
- ☆11Dec 9, 2022Updated 3 years ago
- Structural Variation breakpoint discovery via adaptive learning☆17Jul 6, 2023Updated 2 years ago
- Genome assembly soft-masking using Red (REpeat Detector)☆18Dec 7, 2018Updated 7 years ago
- Automation of pipelines that depend on preexisting assembly, polishing, and alignment tools. Performance evaluation and visualization of …☆13May 29, 2020Updated 6 years ago
- Structural variant detection and association testing☆109Feb 2, 2023Updated 3 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.
- Lossless VCF compression☆21Mar 4, 2022Updated 4 years ago
- Construct a Physical Map from Linked Reads☆18Apr 1, 2026Updated 2 months ago
- Kmer based genotyper for short reads.☆23Oct 19, 2021Updated 4 years ago
- SMRT-SV: Structural variant and indel caller for PacBio reads☆28Feb 21, 2019Updated 7 years ago
- Microassembly based somatic variant caller for NGS data☆154Jun 23, 2022Updated 3 years ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆407May 1, 2026Updated last month
- CAVA (Clinical Annotation of VAriants)☆14Sep 28, 2018Updated 7 years ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆26Apr 29, 2024Updated 2 years ago
- vgraph is a command line application and Python library to compare genetic variants using variant graphs. ``vgraph`` utilizes a graph re…☆43Sep 16, 2021Updated 4 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.
- ☆11Aug 2, 2025Updated 10 months ago
- A bioinformatics tool for SV detection and virus integration discovery☆21Sep 12, 2017Updated 8 years ago
- Scripts and instructions for submitting annotated microbial genomes to Genbank☆16Feb 23, 2016Updated 10 years ago
- ☆51Aug 27, 2019Updated 6 years ago
- A comprehensive, accurate and efficient solution for analysis of large scale base-resolution DNA methylation data☆17Apr 27, 2021Updated 5 years ago
- Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.☆40Jul 15, 2019Updated 6 years ago
- Python deployment tool for bespoke image curation projects, oriented toward scientific projects. Please cite https://academic.oup.com/gig…☆14Aug 6, 2022Updated 3 years ago