REINDEER REad Index for abuNDancE quERy
☆56Jul 6, 2025Updated 10 months ago
Alternatives and similar repositories for REINDEER
Users that are interested in REINDEER are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆13Jan 4, 2026Updated 4 months ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.☆55May 19, 2026Updated last week
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆89Jan 25, 2024Updated 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.
- Building the compacted de Bruijn graph efficiently from references or reads.☆93Feb 26, 2026Updated 3 months ago
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- Core library of the Genome Analysis Toolbox with de-Bruijn graph☆66Feb 1, 2025Updated last year
- a toolkit for evaluation of the lenght of k-mer in a given genome dataset for alignment-free phylogenimic analysis.☆15Nov 21, 2024Updated last year
- ☆24Aug 25, 2025Updated 9 months ago
- Code examples of fast and simple k-mer counters for tutorial purposes☆172Mar 10, 2020Updated 6 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆112Mar 11, 2026Updated 2 months ago
- RabbitMash: an efficient highly optimized implementation of Mash.☆20Oct 28, 2023Updated 2 years ago
- syncmer graphs, and perhaps other sorts of sequence graphs☆36Apr 1, 2026Updated last month
- 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.
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Jan 18, 2019Updated 7 years ago
- Index and query k-mer matrices in BGZF☆12Apr 30, 2018Updated 8 years ago
- Implicit Interval Tree with Interpolation Index☆42Jul 13, 2022Updated 3 years ago
- A hash map using the BooPHF perfect hash function☆13Sep 25, 2016Updated 9 years ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆88Mar 24, 2026Updated 2 months ago
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆198Mar 8, 2022Updated 4 years ago
- ☆24Apr 2, 2021Updated 5 years ago
- URMAP ultra-fast read mapper☆38Jun 15, 2020Updated 5 years ago
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Jun 4, 2022Updated 3 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- De Bruijn graph representation in low memory☆36Jul 6, 2024Updated last year
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆101May 6, 2026Updated 3 weeks ago
- Accurate, resource-frugal and deterministic DNA sequence classifier.☆36May 1, 2026Updated 3 weeks ago
- ☆15Mar 9, 2018Updated 8 years ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated 2 years ago
- The Modular Aligner and The Modular SV Caller☆47Jul 18, 2023Updated 2 years ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆118Dec 13, 2024Updated last year
- MapCaller – An efficient and versatile approach for short-read alignment and variant detection in high-throughput sequenced genomes☆30Feb 1, 2021Updated 5 years ago
- compacted de Bruijn graph construction in low memory☆100Nov 4, 2025Updated 6 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.
- Differential k-mer analysis☆41Jan 29, 2024Updated 2 years ago
- interactive Multi Objective K-mer Analysis☆25Mar 5, 2023Updated 3 years ago
- Squeakr: An Exact and Approximate k -mer Counting System☆86Feb 23, 2025Updated last year
- Indexing & querying large assembly graphs -- in space, no one can hear you miao!☆119Jan 29, 2026Updated 4 months ago
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Dec 16, 2019Updated 6 years ago
- A read extraction and realignment tool for next generation sequencing data☆108Oct 29, 2022Updated 3 years ago
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆224Oct 23, 2025Updated 7 months ago