Simple pileup-based variant caller
☆95Apr 25, 2025Updated 11 months ago
Alternatives and similar repositories for minipileup
Users that are interested in minipileup are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Everything but the kitchen sink☆13Feb 6, 2025Updated last year
- base-accurate DNA sequence alignments using WFA and mashmap3☆212Mar 20, 2026Updated last week
- Transfer HiFi read mappings from their own assembly contigs to a standard reference☆38Dec 30, 2025Updated 2 months ago
- Constructing a pangenome gene graph☆205Aug 11, 2025Updated 7 months ago
- Pairwise whole genome aligner☆233Mar 2, 2026Updated 3 weeks ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Wavefront alignment algorithm (WFA) in Golang☆31Jul 26, 2025Updated 8 months ago
- Correcting errors in noisy long reads using variation graphs☆51Nov 17, 2022Updated 3 years ago
- MEMO: MEM-based pangenome indexing for k-mer queries☆20Jun 11, 2024Updated last year
- ☆38Oct 6, 2025Updated 5 months ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆36Oct 27, 2025Updated 5 months ago
- ☆18Jan 29, 2025Updated last year
- bioinformatics toolkit in rust☆101Feb 15, 2026Updated last month
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated last year
- Whole Genome Alignment Tools☆220Nov 6, 2025Updated 4 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- implicit pangenome graph☆98Updated this week
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated 7 months ago
- ☆42May 19, 2025Updated 10 months ago
- Copy number caller for long read data including SNV utilization☆70Mar 31, 2025Updated 11 months ago
- Genome size estimation from long read overlaps☆81Mar 9, 2026Updated 2 weeks ago
- COsine SImilarity-based Genotyper using pangenomes☆31Feb 13, 2026Updated last month
- SRF: Satellite Repeat Finder☆103Jan 8, 2024Updated 2 years ago
- GFA insert into GenomicSQLite☆49Jun 7, 2021Updated 4 years ago
- Evaluating genome assemblies☆119Mar 3, 2026Updated 3 weeks 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.
- BWT construction and search☆126Jan 14, 2026Updated 2 months ago
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 4 months ago
- An experimental tool to estimate the similarity between all pairs of contigs☆40Apr 12, 2021Updated 4 years ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆143Aug 24, 2025Updated 7 months ago
- LongcallR is a SNP caller for single molecule long-read RNA-seq data☆73Mar 16, 2026Updated last week
- A local-haplotagging-based small and structural variant caller☆100Updated this week
- Long read aligner for cyclic and acyclic pangenome graphs☆40Dec 20, 2023Updated 2 years ago
- A bioinformatics tool written in Rust to find palindromic sequences in DNA☆39Feb 20, 2026Updated last month
- A program for assessing the T2T genome continuity☆92Feb 28, 2026Updated last month
- NordVPN Special Discount Offer • AdSave on top-rated NordVPN 1 or 2-year plans with secure browsing, privacy protection, and support for for all major platforms.
- HitSV: Maximizing discovery of structural variants across sequencing technologies☆25Feb 18, 2026Updated last month
- Panacus is a tool for computing statistics for GFA-formatted pangenome graphs☆122Mar 20, 2026Updated last week
- HELIANO is a software for detection and classification of Helitron-like elements.☆33Jun 10, 2025Updated 9 months ago
- Fast and accurate coordinate conversion between assemblies☆118Oct 9, 2025Updated 5 months ago
- vcfdist: Accurately benchmarking phased variant calls☆85Feb 23, 2026Updated last month
- SV detection tool for nanopore sequence reads☆97Updated this week
- Jasmine: SV Merging Across Samples☆244Dec 20, 2024Updated last year