MauricioCarneiro / PairHMM
Optimization of a Haplotype PairHMM class for GPU processing
☆24Updated 7 years ago
Alternatives and similar repositories for PairHMM:
Users that are interested in PairHMM are comparing it to the libraries listed below
- Hardware Acceleration of Long Read Pairwise Overlapping in Genome Sequencing: Open Source Repository☆33Updated 2 months ago
- Shouji is fast and accurate pre-alignment filter for banded sequence alignment calculation. Described in the Bioinformatics journal paper…☆17Updated 5 years ago
- Building upon BWA-MEM2, this repository includes performance improvements to the seeding and mate-rescue steps.☆13Updated 3 years ago
- A C++14 library for NGS data formats☆40Updated 5 years ago
- ☆15Updated 7 years ago
- Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…☆37Updated last year
- LOGAN: High-Performance Multi-GPU X-Drop Long-Read Alignment.☆28Updated 2 years ago
- An experimental tool to find approximate max-cuts in a large graph☆11Updated 3 years ago
- A tool for merging large BWTs☆26Updated 4 years ago
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆48Updated 2 years ago
- Accelerated kernel library for genomics☆105Updated 5 months ago
- Falcon Accelerated Genomics Pipelines☆15Updated 5 years ago
- HPG Aligner is an ultrafast and highly sensitive Next-Generation Sequencing (NGS) mapper which supoprts both DNA and RNA alignment☆34Updated 7 years ago
- Streaming algorithm for computing kmer statistics for massive genomics datasets☆53Updated 4 years ago
- utilities for indexing and sequence extraction from FASTA files☆59Updated 3 years ago
- micro-read Fast Alignment Search Tool☆19Updated 5 years ago
- efficient alignment of strings to partially ordered string graphs☆33Updated 2 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 2 years ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆57Updated 7 months ago
- NVBIO is a library of reusable components designed to accelerate bioinformatics applications using CUDA.☆59Updated 10 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆40Updated 2 years ago
- SneakySnake is the first and the only pre-alignment filtering algorithm that works efficiently and fast on modern CPU, FPGA, and GPU arch…☆50Updated last year
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated 10 months ago
- GPU implementation of the Wavefront Alignment Algorithm for global, gap-affine, pairwise sequence alginment☆30Updated 3 months ago
- ☆20Updated 9 years ago
- Parallel Sequence to Graph Alignment☆35Updated 2 years ago
- Global alignment and alignment extension☆130Updated last year
- Efficient base quality score recalibrator for NGS data☆24Updated 9 years ago
- mrsFAST: micro-read substitution-only Fast Alignment Search Tool☆28Updated 4 years ago
- Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution"☆64Updated 4 years ago