a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
☆37Aug 4, 2021Updated 4 years ago
Alternatives and similar repositories for modimizer
Users that are interested in modimizer are comparing it to the libraries listed below
Sorting:
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Nov 27, 2019Updated 6 years ago
- Indel-aware consensus for aligned BAM☆21Aug 16, 2025Updated 6 months ago
- nimble aligner that will map your reads to the references on a laptop☆11Jun 29, 2017Updated 8 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Graph-based mapping of long sequences, noisy or HiFi.☆55Oct 5, 2020Updated 5 years ago
- ☆20Aug 18, 2020Updated 5 years ago
- Histosketching Using Little Kmers☆56May 25, 2023Updated 2 years ago
- ☆11Dec 9, 2022Updated 3 years ago
- Contains the description of a file format to store kmers and associated values☆34Aug 17, 2022Updated 3 years ago
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- Simulate mutations in genomes☆15Jun 15, 2020Updated 5 years ago
- alignment to variation graph inducer☆157Updated this week
- Filter of Pairwise Alignement☆44Jan 31, 2022Updated 4 years ago
- An experimental tool to find approximate max-cuts in a large graph☆10Apr 28, 2021Updated 4 years ago
- Streaming sequence classification with web services ✓📌☆19Dec 8, 2022Updated 3 years ago
- Simple succinct data structures (in Rust)☆54Feb 12, 2026Updated 2 weeks ago
- Genome inference from a population reference graph☆96Apr 1, 2025Updated 11 months ago
- Practical Dynamic de Bruijn Graphs☆18Oct 1, 2020Updated 5 years ago
- REINDEER REad Index for abuNDancE quERy☆56Jul 6, 2025Updated 7 months ago
- online notebooks for a review of genome sketching☆60Sep 23, 2019Updated 6 years ago
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 5 years ago
- ☆13Jan 23, 2020Updated 6 years ago
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Dec 16, 2019Updated 6 years ago
- Hidden Markov Model based Copy number caller☆20Dec 9, 2025Updated 2 months ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 3 years ago
- The Modular Aligner and The Modular SV Caller☆46Jul 18, 2023Updated 2 years ago
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆93Feb 24, 2026Updated last week
- Substring index for paths in a graph☆60Feb 10, 2026Updated 3 weeks ago
- ☆24Apr 2, 2021Updated 4 years ago
- A lightweight library for working with PAF (Pairwise mApping Format) files☆30May 3, 2022Updated 3 years ago
- [IMPORTANT: not for real data analysis, only for algorithm evaluation] fast and accurate alignment tool for PacBio and Nanopore long read…☆125Sep 10, 2018Updated 7 years ago
- GFA insert into GenomicSQLite☆49Jun 7, 2021Updated 4 years ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Jan 9, 2021Updated 5 years ago
- Accurate and fast taxonomic classification using pseudoaligning☆21Sep 16, 2017Updated 8 years ago
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Jun 4, 2022Updated 3 years ago
- A fast K-mer counter for high-fidelity shotgun datasets☆141Jan 19, 2026Updated last month
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆70Jun 17, 2024Updated last year
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24May 30, 2024Updated last year
- An efficient index for the colored, compacted, de Bruijn graph☆111Oct 7, 2024Updated last year