a wee tool for random access into BGZF files.
☆86May 10, 2018Updated 8 years ago
Alternatives and similar repositories for grabix
Users that are interested in grabix are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Dec 3, 2017Updated 8 years ago
- A genotype query interface.☆136Mar 29, 2021Updated 5 years ago
- Flexible genotype query among 30,000+ samples whole-genome☆95Sep 4, 2019Updated 7 years ago
- Blacktie: a streamlined interface to the popular tophat/cufflinks RNA-seq pipeline☆26Oct 5, 2015Updated 11 years ago
- Index and query k-mer matrices in BGZF☆12Apr 30, 2018Updated 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.
- Fast and memory-efficient sequencing error corrector☆96Jan 4, 2026Updated 9 months ago
- ☆43Apr 20, 2016Updated 10 years ago
- pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)☆49Mar 3, 2017Updated 9 years ago
- nim wrapper for htslib for parsing genomics data files☆159Sep 30, 2026Updated last month
- use the noise☆14Apr 15, 2020Updated 6 years ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆404Jun 16, 2026Updated 4 months ago
- A tool set for short variant discovery in genetic sequence data.☆207May 4, 2021Updated 5 years ago
- Streaming relation (overlap, distance, KNN) of (any number of) sorted genomic interval sets. #golang☆46Jun 16, 2026Updated 4 months ago
- Global alignment and alignment extension☆144Jun 27, 2023Updated 3 years 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.
- ☆36Aug 13, 2020Updated 6 years ago
- Rapid competitive read demulitplexer. Made with tries.☆23Oct 14, 2026Updated 2 weeks ago
- goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary☆227Sep 18, 2025Updated last year
- vgraph is a command line application and Python library to compare genetic variants using variant graphs. ``vgraph`` utilizes a graph re…☆42Sep 16, 2021Updated 5 years ago
- LoFreq Star: Sensitive variant calling from sequencing data☆111Oct 16, 2025Updated last year
- Basic, no assumptions, multi-pileup☆24Mar 26, 2014Updated 12 years ago
- Numerical Encoding for Human Genetic Variants☆43Jun 8, 2023Updated 3 years ago
- A C library for handling bigWig files☆83Oct 11, 2026Updated 3 weeks ago
- efficient alignment of strings to partially ordered string graphs☆33Apr 22, 2026Updated 6 months 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.
- Integrated Variant Caller☆17Mar 15, 2018Updated 8 years ago
- C++ htslib/bwa-mem/fermi interface for interrogating sequence data☆139Apr 27, 2026Updated 6 months ago
- DEPRECATED Lightweight bioinformatics pipeline tools using iPython☆14Dec 11, 2015Updated 10 years ago
- Interval data structure☆235Mar 18, 2026Updated 7 months ago
- fast, pure-python interval overlap testing☆52Oct 2, 2020Updated 6 years ago
- The Dagstuhl Format for Assembly☆13Oct 16, 2017Updated 9 years ago
- Implicit Interval Tree with Interpolation Index☆43Jul 13, 2022Updated 4 years ago
- Preprocessing paired-end reads produced with experiment-specific protocols☆32Jun 28, 2018Updated 8 years ago
- significance testing over interval overlaps☆30Jul 11, 2020Updated 6 years ago
- 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.
- De novo assembly based variant calling pipeline for Illumina short reads☆110Nov 30, 2020Updated 5 years ago
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 11 years ago
- C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings☆687Oct 2, 2026Updated last month
- Library for indexing VCF files for random access searches by rsID☆17Mar 2, 2026Updated 8 months ago
- genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF☆152Feb 17, 2026Updated 8 months ago
- prioritize effects of variant annotations from VEP, SnpEff, et al.☆35Sep 25, 2026Updated last month
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Jan 18, 2019Updated 7 years ago