Strelka2 germline and somatic small variant caller
☆394Apr 20, 2026Updated last month
Alternatives and similar repositories for strelka
Users that are interested in strelka 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 and indel caller for mapped sequencing data☆467Oct 11, 2025Updated 8 months ago
- VarDict☆204Jan 5, 2024Updated 2 years ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆99Apr 20, 2026Updated last month
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆525Jun 12, 2026Updated last week
- Canvas - Copy number variant (CNV) calling from DNA sequencing data☆129Apr 20, 2026Updated last month
- 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.
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆417May 25, 2026Updated 3 weeks ago
- microsatellite instability detection using tumor only or paired tumor-normal data☆133Jan 6, 2021Updated 5 years ago
- Microassembly based somatic variant caller for NGS data☆154Jun 23, 2022Updated 3 years ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆858May 2, 2026Updated last month
- Haplotype VCF comparison tools☆469Dec 7, 2023Updated 2 years ago
- The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants☆559Jun 10, 2026Updated last week
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆167Mar 28, 2023Updated 3 years ago
- lumpy: a general probabilistic framework for structural variant discovery☆342Feb 22, 2026Updated 3 months ago
- Copy number variant detection from targeted DNA sequencing☆612Jun 9, 2026Updated last week
- 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.
- Tools for working with SAM/BAM data☆609Dec 22, 2024Updated last year
- Structural variation and indel detection by local assembly☆256Jun 7, 2026Updated last week
- A tool for estimating repeat sizes☆214Jan 30, 2024Updated 2 years ago
- The next version of bwa-mem☆838Oct 15, 2025Updated 8 months ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆871Apr 20, 2026Updated last month
- Official code repository for GATK versions 4 and up☆1,965Jun 12, 2026Updated last week
- VarDict Java port☆141Jan 5, 2024Updated 2 years ago
- The nimble & robust variant annotator☆197Apr 20, 2026Updated last month
- Bayesian haplotype-based mutation calling☆324Feb 13, 2026Updated 4 months 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.
- A tool set for short variant discovery in genetic sequence data.☆206May 4, 2021Updated 5 years ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆284May 21, 2025Updated last year
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆335May 27, 2025Updated last year
- ABRA2☆97Dec 2, 2022Updated 3 years ago
- tools for adding mutations to existing .bam files, used for testing mutation callers☆251Oct 18, 2024Updated last year
- structural variant calling and genotyping with existing tools, but, smoothly.☆266Jun 17, 2024Updated 2 years ago
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,376Jun 1, 2026Updated 2 weeks ago
- Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …☆178Jan 7, 2020Updated 6 years ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆407May 1, 2026Updated last month
- 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.
- a lightweight db framework for exploring genetic variation.☆329Apr 28, 2020Updated 6 years ago
- C++ API & command-line toolkit for working with BAM data☆430May 18, 2025Updated last year
- Precision HLA typing from next-generation sequencing data☆219May 20, 2026Updated 3 weeks ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Oct 6, 2020Updated 5 years ago
- Annotates variants in MAF with OncoKB annotation.☆144Jun 1, 2026Updated 2 weeks ago
- don't get DUP'ed or DEL'ed by your putative SVs.☆108Dec 14, 2020Updated 5 years ago
- samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.☆241Aug 11, 2021Updated 4 years ago