lh3 / ropebwt2
Incremental construction of FM-index for DNA sequences
☆68Updated 5 months ago
Related projects ⓘ
Alternatives and complementary repositories for ropebwt2
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated 8 months ago
- Adaptive semi-global banded alignment on string graphs☆63Updated 6 years ago
- A fast, AVX2 and ARM Neon accelerated FM index library☆31Updated 3 months ago
- BWT-based index for graphs☆71Updated 2 weeks ago
- FMtree: A fast locating algorithm of FM-indexes for genomic data☆18Updated 7 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆108Updated last month
- A fast constructor of the compressed de Bruijn graph from many genomes☆40Updated 2 years ago
- De Bruijn graph representation in low memory☆36Updated 4 months ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆51Updated 2 years ago
- Population-scale detection of novel sequence insertions☆27Updated 2 years ago
- Estimating k-mer coverage histogram of genomics data☆76Updated 11 months ago
- Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution"☆64Updated 4 years ago
- A C++ header-only library for reading Oxford Nanopore Fast5 files☆53Updated 2 years ago
- a string to graph aligner☆41Updated 8 years ago
- Graph based multi genome aligner☆46Updated 3 years ago
- ☆49Updated last year
- Fast spliced aligner with low memory requirements☆41Updated 9 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- An Oxford Nanopore Basecaller☆71Updated 3 years ago
- Parallel Sequence to Graph Alignment☆35Updated last year
- HMM-guided metagenomic gene-targeted assembler using iterative de Bruijn graphs☆17Updated 8 years ago
- REINDEER REad Index for abuNDancE quERy☆57Updated 3 months ago
- Create Bloom filters for a given reference and then use it to categorize sequences☆76Updated 3 weeks ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆50Updated 2 months ago
- [IMPORTANT: not for real data analysis, only for algorithm evaluation] fast and accurate alignment tool for PacBio and Nanopore long read…☆126Updated 6 years ago
- Graph-based mapping of long sequences, noisy or HiFi.☆54Updated 4 years ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated 5 months ago
- ☆12Updated 5 years ago
- de Bruijn Graph-based read aligner☆33Updated 6 years ago
- De novo genome assembly and multisample variant calling☆113Updated 5 years ago