ljdursi / poapyLinks
A simple Partial Order Aligner based on Lee, Grasso and Sharlow (2002), for education/demonstration purposes
☆74Updated last year
Alternatives and similar repositories for poapy
Users that are interested in poapy are comparing it to the libraries listed below
Sorting:
- Adaptive semi-global banded alignment on string graphs☆67Updated 7 years ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆68Updated 10 months ago
- Core library of the Genome Analysis Toolbox with de-Bruijn graph☆63Updated 6 months ago
- Assembled Genomes Compressor☆168Updated 9 months ago
- Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…☆92Updated 3 months ago
- A C++ header-only library for reading Oxford Nanopore Fast5 files☆53Updated 3 years ago
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆126Updated last month
- Building the compacted de Bruijn graph efficiently from references or reads.☆89Updated 3 months ago
- An efficient index for the colored, compacted, de Bruijn graph☆110Updated 10 months ago
- vcfdist: Accurately benchmarking phased variant calls☆83Updated last month
- A repository for generating strobemers and evalaution☆79Updated last year
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Updated 3 years ago
- Pangenome graphs (review article on graph-based pangenomic methods)☆72Updated 5 years ago
- BWT construction and search☆116Updated last month
- Estimating k-mer coverage histogram of genomics data☆77Updated last year
- Genome inference from a population reference graph☆97Updated 4 months ago
- Bidirectional WFA (Paper)☆47Updated last year
- AStarix: Fast and Optimal Sequence-to-Graph Aligner☆74Updated 3 years ago
- Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences☆59Updated 3 weeks ago
- This is an updated mirror of the original PacBio Read Simulator☆38Updated 7 years ago
- online notebooks for a review of genome sketching☆61Updated 5 years ago
- A Strategy for Building and Using a Human Reference Pangenome☆71Updated 5 years ago
- A versatile compressor of third generation sequencing reads.☆51Updated last year
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆66Updated last year
- compacted de Bruijn graph construction in low memory☆100Updated 10 months ago
- Python bindings to spoa☆21Updated 2 weeks ago
- Substring index for paths in a graph☆60Updated 4 months ago
- REINDEER REad Index for abuNDancE quERy☆57Updated last month
- alignment to variation graph inducer☆150Updated last month
- Python bindings to bwa mem☆32Updated 5 years ago