jltsiren / gcsa2Links
BWT-based index for graphs
☆72Updated 6 months ago
Alternatives and similar repositories for gcsa2
Users that are interested in gcsa2 are comparing it to the libraries listed below
Sorting:
- Substring index for paths in a graph☆60Updated 5 months ago
- compacted de Bruijn graph construction in low memory☆99Updated 11 months ago
- Core library of the Genome Analysis Toolbox with de-Bruijn graph☆63Updated 7 months ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆52Updated last year
- Incremental construction of FM-index for DNA sequences☆72Updated last year
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Updated 7 months ago
- Adaptive semi-global banded alignment on string graphs☆66Updated 7 years ago
- A C++ header-only library for reading Oxford Nanopore Fast5 files☆53Updated 3 years ago
- De novo genome assembly and multisample variant calling☆112Updated 6 years ago
- Estimating k-mer coverage histogram of genomics data☆76Updated last year
- Implementation of Positional Burrows-Wheeler Transform for genetic data☆110Updated 6 months ago
- An Oxford Nanopore Basecaller☆70Updated 4 years ago
- Fast and memory-efficient sequencing error corrector☆93Updated last year
- Genome inference from a population reference graph☆96Updated 5 months ago
- utilities for indexing and sequence extraction from FASTA files☆59Updated 4 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆109Updated 11 months ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆69Updated 10 months ago
- Parallel Sequence to Graph Alignment☆36Updated 2 years ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆54Updated 3 years ago
- efficient alignment of strings to partially ordered string graphs☆33Updated 3 years ago
- de Bruijn Graph-based read aligner☆33Updated 7 years ago
- This is an updated mirror of the original PacBio Read Simulator☆38Updated 7 years ago
- Standalone C library for assembling Illumina short reads in small regions☆72Updated 2 years ago
- MinHash Alignment Process (MHAP, pronounced MAP): locality-sensitive hashing to detect long-read overlaps and utilities☆97Updated 3 years ago
- Flexible genotype query among 30,000+ samples whole-genome☆94Updated 6 years ago
- a string to graph aligner☆41Updated 9 years ago
- Antibiotic resistance predictions in minutes on a laptop☆50Updated 6 years ago
- De novo assembly based variant calling pipeline for Illumina short reads☆108Updated 4 years ago
- tools for error correction and working with long read data☆44Updated 10 years ago
- Building the compacted de Bruijn graph efficiently from references or reads.☆89Updated 4 months ago