C++ library for analysing and storing large-scale cohorts of sequence variant data
☆17Aug 27, 2019Updated 7 years ago
Alternatives and similar repositories for djinn
Users that are interested in djinn are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- High-level API for storing and querying sequence variant data☆20May 24, 2019Updated 7 years ago
- Parallel Sequence to Graph Alignment☆35Nov 26, 2022Updated 3 years ago
- Rapid competitive read demulitplexer. Made with tries.☆23May 19, 2025Updated last year
- This repo is deprecated. Please use gfatools instead.☆15Aug 17, 2018Updated 8 years ago
- Pan-genome Seed Index☆20Jul 3, 2026Updated 2 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Substring index for paths in a graph☆62Aug 19, 2026Updated 2 weeks ago
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Aug 1, 2026Updated last month
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Feb 2, 2021Updated 5 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆36Aug 4, 2021Updated 5 years ago
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 6 years ago
- The 3rd incarnation of the Wise package for sequence analysis☆23Jun 19, 2014Updated 12 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24May 30, 2024Updated 2 years ago
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Nov 27, 2019Updated 6 years ago
- efficient alignment of strings to partially ordered string graphs☆33Apr 22, 2026Updated 4 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- SeqOthello supports fast coverage query and containment query.☆12May 8, 2019Updated 7 years ago
- URMAP ultra-fast read mapper☆38Jun 15, 2020Updated 6 years ago
- BlastGraph is a new tool for computing intensive approximate pattern matching in a sequence graph or a de-Bruijn graph. Given an oriented…☆12May 9, 2013Updated 13 years ago
- Genome inference from a population reference graph☆96Apr 1, 2025Updated last year
- VariantStore: A Large-Scale Genomic Variant Search Index☆40Jul 9, 2021Updated 5 years ago
- Lift-over alignments from variant-aware references☆34Mar 4, 2023Updated 3 years ago
- Adaptive semi-global banded alignment on string graphs☆66May 4, 2018Updated 8 years ago
- deSAMBA: fast and accurate classification of metagenomics long reads with sparse approximate matches☆12May 5, 2024Updated 2 years ago
- Sequence Bloom Trees with All/Some split☆11Oct 30, 2018Updated 7 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.
- Header-only, gzread-like reader for gzip, bz2, and xz.☆11Aug 8, 2018Updated 8 years ago
- Linear-time, low-memory construction of variation graphs☆20Updated this week
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Jan 9, 2021Updated 5 years ago
- Tools to process LIANTI sequence data☆23Feb 20, 2019Updated 7 years ago
- Simple and fast MinHash implementation in C with Python wrapper☆13Jul 24, 2025Updated last year
- genotyping by Mapping-free ALternate-allele detection of known VAriants☆10Mar 6, 2023Updated 3 years ago
- the we-flyin WFA-guided ultralong tiling sequence aligner☆10May 13, 2021Updated 5 years ago
- Ancestry and Kinship Tools☆70Apr 20, 2026Updated 4 months ago
- Extremely fast inplace radix sort☆44Jan 31, 2020Updated 6 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- perform genotype-phenotype-association tests on a VCF with logistic regression.☆20Dec 15, 2015Updated 10 years ago
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆51Apr 9, 2021Updated 5 years ago
- Read CRAM v3 and v2 in node or in the browser☆18Updated this week
- A Lossy compressor for Quality Scores in Genomic Data☆12Oct 4, 2016Updated 9 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆112Jun 19, 2026Updated 2 months ago
- Portable Crystal binary distributions for Linux on x86_64☆15Mar 22, 2021Updated 5 years ago
- Self-contained, multi-threaded fasta/q parser☆50Mar 10, 2026Updated 5 months ago