VarDict Java port
☆141Jan 5, 2024Updated 2 years ago
Alternatives and similar repositories for VarDictJava
Users that are interested in VarDictJava are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- VarDict☆204Jan 5, 2024Updated 2 years ago
- Tools for working with genomic and high throughput sequencing data.☆379Updated this week
- Strelka2 germline and somatic small variant caller☆393Apr 20, 2026Updated 6 months ago
- Copy number calling and variant classification using targeted short read sequencing☆150Oct 6, 2026Updated 3 weeks ago
- ☆36Mar 16, 2021Updated 5 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Structural variant and indel caller for mapped sequencing data☆467Oct 11, 2025Updated last year
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆166Mar 28, 2023Updated 3 years ago
- Gene fusion detection and visualization☆133Feb 21, 2022Updated 4 years ago
- Fast fusion detection using kallisto☆80Jun 11, 2025Updated last year
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆538Oct 14, 2026Updated 2 weeks ago
- tools for adding mutations to existing .bam files, used for testing mutation callers☆253Aug 5, 2026Updated 2 months ago
- a wee tool for random access into BGZF files.☆86May 10, 2018Updated 8 years ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆286May 21, 2025Updated last year
- ABRA2☆95Dec 2, 2022Updated 3 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.
- Microassembly based somatic variant caller for NGS data☆153Jun 23, 2022Updated 4 years ago
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆420May 25, 2026Updated 5 months ago
- Structural variation and indel detection by local assembly☆258Aug 19, 2026Updated 2 months ago
- Microsatellite instability (MSI) detection for tumor only data.☆116Apr 23, 2024Updated 2 years ago
- An ensemble approach to accurately detect somatic mutations using SomaticSeq☆207Aug 23, 2026Updated 2 months ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆98Apr 20, 2026Updated 6 months ago
- Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …☆179Jan 7, 2020Updated 6 years ago
- don't get DUP'ed or DEL'ed by your putative SVs.☆109Dec 14, 2020Updated 5 years ago
- Software program for checking sample matching for NGS data☆145Jun 20, 2024Updated 2 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- annotate a VCF with other VCFs/BEDs/tabixed files☆404Jun 16, 2026Updated 4 months ago
- a lightweight db framework for exploring genetic variation.☆327Apr 28, 2020Updated 6 years ago
- STAR-Fusion codebase☆255Oct 14, 2026Updated 2 weeks ago
- ☆69Jun 21, 2022Updated 4 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆20Sep 28, 2022Updated 4 years ago
- Bayesian haplotype-based mutation calling☆326Feb 13, 2026Updated 8 months ago
- MrMosaic (Genomic Mosaic Structural Variant Caller)☆15Jul 21, 2017Updated 9 years ago
- ☆44Nov 18, 2019Updated 6 years ago
- Deep learning-based structural variant filtering method☆40Nov 19, 2023Updated 2 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.
- Tools for working with SAM/BAM data☆613Dec 22, 2024Updated last year
- Personal Cancer Genome Reporter (PCGR)☆284Updated this week
- Copy number variant detection from targeted DNA sequencing☆617Oct 15, 2026Updated 2 weeks ago
- Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets☆37Jul 30, 2020Updated 6 years ago
- Tools for extracting read counts and gc and mappability statistics in preparation for running HMMCopy.☆45Jul 28, 2021Updated 5 years ago
- Fast and accurate gene fusion detection from RNA-Seq data☆281Sep 21, 2025Updated last year
- The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants☆578Oct 21, 2026Updated last week