ParBLiSS / kmerind
Parallel k-mer indexing for biological sequences
☆12Updated 6 years ago
Alternatives and similar repositories for kmerind
Users that are interested in kmerind are comparing it to the libraries listed below
Sorting:
- Self-contained, multi-threaded fasta/q parser☆43Updated 7 months ago
- HMM-guided metagenomic gene-targeted assembler using iterative de Bruijn graphs☆17Updated 8 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated last year
- ☆17Updated last year
- Space-efficient pseudoalignment with a colored de Bruijn graph☆52Updated 2 months ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆40Updated 3 months ago
- Parallel Sequence to Graph Alignment☆37Updated 2 years ago
- ☆25Updated 4 years ago
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆50Updated this week
- Adaptive semi-global banded alignment on string graphs☆66Updated 7 years ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated 11 months ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆54Updated 3 years ago
- URMAP ultra-fast read mapper☆38Updated 4 years ago
- ☆28Updated last month
- Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.☆10Updated 7 years ago
- Classify sequencing reads using MinHash.☆48Updated 5 years ago
- A pipeline for detecting mis-assemblies in metagenomic assemblies.☆14Updated 7 years ago
- REINDEER REad Index for abuNDancE quERy☆58Updated 9 months ago
- This repo is deprecated. Please use gfatools instead.☆16Updated 6 years ago
- ☆24Updated 7 years ago
- SAPLING: Suffix Array Piecewise Linear INdex for Genomics☆25Updated 4 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 3 years ago
- Python bindings for Bifrost's compacted colored de Bruijn Graph with a NetworkX-compatible API☆28Updated last year
- A efficient method to construct BWT index of a given DNA sequence, especially useful for gigantic and high similar genome.☆14Updated 9 years ago
- An experimental tool to find approximate max-cuts in a large graph☆11Updated 4 years ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆57Updated 11 months ago
- An illumina paired-end and mate-pair short read simulator. This project attempts to model as many of the quirks that exist in Illumina da…☆66Updated 10 years ago
- Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.☆41Updated 5 years ago
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆48Updated 3 years ago