jltsiren / gcsa2Links
BWT-based index for graphs
☆73Updated 10 months ago
Alternatives and similar repositories for gcsa2
Users that are interested in gcsa2 are comparing it to the libraries listed below
Sorting:
- Incremental construction of FM-index for DNA sequences☆72Updated last year
- Core library of the Genome Analysis Toolbox with de-Bruijn graph☆65Updated 11 months ago
- Substring index for paths in a graph☆60Updated last week
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆53Updated last year
- A C++ header-only library for reading Oxford Nanopore Fast5 files☆53Updated 3 years ago
- Adaptive semi-global banded alignment on string graphs☆66Updated 7 years ago
- compacted de Bruijn graph construction in low memory☆100Updated 2 months ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Updated 2 months ago
- Estimating k-mer coverage histogram of genomics data☆77Updated 2 years ago
- Implementation of Positional Burrows-Wheeler Transform for genetic data☆112Updated 2 months ago
- a string to graph aligner☆41Updated 9 years ago
- utilities for indexing and sequence extraction from FASTA files☆59Updated 4 years ago
- De novo genome assembly and multisample variant calling☆112Updated 6 years ago
- MinHash Alignment Process (MHAP, pronounced MAP): locality-sensitive hashing to detect long-read overlaps and utilities☆98Updated 3 years ago
- Genome inference from a population reference graph☆96Updated 9 months ago
- An Oxford Nanopore Basecaller☆70Updated 4 years ago
- de Bruijn Graph-based read aligner☆35Updated 7 years 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…☆68Updated 11 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆111Updated last year
- Fast and memory-efficient sequencing error corrector☆94Updated 3 weeks ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆71Updated 2 months ago
- Parallel Sequence to Graph Alignment☆36Updated 3 years ago
- Standalone C library for assembling Illumina short reads in small regions☆72Updated 3 years ago
- Population-scale detection of novel sequence insertions☆27Updated 3 years ago
- REINDEER REad Index for abuNDancE quERy☆56Updated 6 months ago
- High-performance error correction for Illumina resequencing data☆74Updated 9 years ago
- tools for error correction and working with long read data☆44Updated 11 years ago
- Squeakr: An Exact and Approximate k -mer Counting System☆86Updated 11 months ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆70Updated last year
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆55Updated 3 years ago