Genomic variant annotation and functional effect prediction
☆313Mar 9, 2026Updated 7 months ago
Alternatives and similar repositories for SnpEff
Users that are interested in SnpEff are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Filter, annotate and manipulate VCF files☆41Feb 16, 2026Updated 7 months ago
- The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants☆577Updated this week
- This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.gith…☆896Sep 30, 2026Updated last week
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆537Oct 5, 2026Updated last week
- Annotation and Ranking of Structural Variation☆310Aug 11, 2026Updated 2 months 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.
- bedtools - the swiss army knife for genome arithmetic☆1,054Jun 10, 2026Updated 4 months ago
- Official code repository for GATK versions 4 and up☆2,004Updated this week
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆878May 2, 2026Updated 5 months ago
- Copy number variant detection from targeted DNA sequencing☆616Aug 18, 2026Updated last month
- structural variant calling and genotyping with existing tools, but, smoothly.☆266Jun 17, 2024Updated 2 years ago
- ClassifyCNV: a tool for clinical annotation of copy-number variants☆75Jun 26, 2023Updated 3 years ago
- pbsv - PacBio structural variant (SV) calling and analysis tools☆168Jul 15, 2026Updated 2 months ago
- Synteny and Rearrangement Identifier☆492Jul 1, 2026Updated 3 months ago
- lumpy: a general probabilistic framework for structural variant discovery☆346Feb 22, 2026Updated 7 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.
- Mummer alignment tool☆576Feb 4, 2025Updated last year
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,768Aug 7, 2026Updated 2 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,253May 19, 2026Updated 4 months ago
- Structural variant and indel caller for mapped sequencing data☆467Oct 11, 2025Updated last year
- annotate a VCF with other VCFs/BEDs/tabixed files☆403Jun 16, 2026Updated 3 months ago
- Structural variant toolkit for VCFs☆424Oct 3, 2026Updated last week
- Tools for working with SAM/BAM data☆613Dec 22, 2024Updated last year
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆337May 27, 2025Updated last year
- Long read based human genomic structural variation detection with cuteSV☆295Sep 24, 2026Updated 2 weeks 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.
- A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.☆565May 15, 2025Updated last year
- Structural variation caller using third generation sequencing☆684Sep 10, 2026Updated last month
- A Variant Call Format reader for Python.☆420Sep 22, 2023Updated 3 years ago
- Read-based phasing of genomic variants, also called haplotype assembly☆430Sep 24, 2026Updated 2 weeks ago
- Toolset for SV simulation, comparison and filtering☆426Dec 1, 2023Updated 2 years ago
- Clair3 - Symphonizing pileup and full-alignment for deep learning-based long-read variant calling☆393Oct 5, 2026Updated last week
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,437Oct 7, 2026Updated last week
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,081Jul 31, 2026Updated 2 months ago
- Toolkit for processing sequences in FASTA/Q formats☆1,564Jun 1, 2025Updated last year
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Documentation for the ANNOVAR software☆260Sep 25, 2026Updated 2 weeks ago
- samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.☆243Aug 11, 2021Updated 5 years ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆881Sep 3, 2026Updated last month
- Jasmine: SV Merging Across Samples☆262Dec 20, 2024Updated last year
- The next version of bwa-mem☆864Oct 15, 2025Updated 11 months ago
- Structural variation and indel detection by local assembly☆259Aug 19, 2026Updated last month
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆166Mar 28, 2023Updated 3 years ago