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.☆53May 2, 2026Updated last week
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆88Jan 25, 2024Updated 2 years 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.
- Building the compacted de Bruijn graph efficiently from references or reads.☆92Feb 26, 2026Updated 2 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☆67Feb 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 8 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 last month
- RabbitMash: an efficient highly optimized implementation of Mash.☆20Oct 28, 2023Updated 2 years ago
- syncmer graphs, and perhaps other sorts of sequence graphs☆35Apr 1, 2026Updated last month
- 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.
- 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☆87Mar 24, 2026Updated last month
- 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
- 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.
- De Bruijn graph representation in low memory☆36Jul 6, 2024Updated last year
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆98Updated this week
- Accurate, resource-frugal and deterministic DNA sequence classifier.☆36May 1, 2026Updated last week
- ☆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☆120Dec 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
- Differential k-mer analysis☆40Jan 29, 2024Updated 2 years 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.
- interactive Multi Objective K-mer Analysis☆24Mar 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 3 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☆107Oct 29, 2022Updated 3 years ago
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆224Oct 23, 2025Updated 6 months 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