albertozeni / LOGAN
LOGAN: High-Performance Multi-GPU X-Drop Long-Read Alignment.
☆28Updated 2 years ago
Alternatives and similar repositories for LOGAN:
Users that are interested in LOGAN are comparing it to the libraries listed below
- Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…☆37Updated last year
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆48Updated 2 years ago
- Shouji is fast and accurate pre-alignment filter for banded sequence alignment calculation. Described in the Bioinformatics journal paper…☆17Updated 5 years ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆18Updated last week
- BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy…☆42Updated last year
- Hardware Acceleration of Long Read Pairwise Overlapping in Genome Sequencing: Open Source Repository☆33Updated 2 months 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
- Parallel String Graph Construction, Transitive Reduction, and Contig Generation for De Novo Genome Assembly☆15Updated 7 months ago
- GPU implementation of the Wavefront Alignment Algorithm for global, gap-affine, pairwise sequence alginment☆30Updated 3 months ago
- AirLift is a tool that updates mapped reads from one reference genome to another. Unlike existing tools, It accounts for regions not shar…☆27Updated 7 months ago
- CUDASW++4.0: Ultra-fast GPU-based Smith-Waterman Protein Sequence Database Search☆36Updated 2 months ago
- generating hardware accelerators for pangenomic graph queries☆37Updated 2 weeks 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
- Source code for the software implementation of SeGraM proposed in our ISCA 2022 paper: Senol Cali et. al., "SeGraM: A Universal Hardware …☆12Updated 2 years ago
- RawHash can accurately and efficiently map raw nanopore signals to reference genomes of varying sizes (e.g., from viral to a human genome…☆51Updated last month
- A benchmark suite to study the performance characteristics of genomics applications☆29Updated 2 months ago
- High Performance Sorting Based Distributed memory K-mer counter☆11Updated 6 months ago
- Apollo is an assembly polishing algorithm that attempts to correct the errors in an assembly. It can take multiple set of reads in a sing…☆27Updated 4 years ago
- GFA visualizer, GPU-accelerated using Vulkan☆69Updated 2 years ago
- Efficient, parallel compression for terabyte-scale data☆36Updated this week
- Parallel Sequence to Graph Alignment☆35Updated 2 years ago
- A fuzzy Bruijn graph approach to long noisy reads assembly☆39Updated 7 years ago
- De Bruijn graph construction for large k.☆18Updated 3 years ago
- Benchmarking pairwise aligners☆36Updated 9 months ago
- C implementation of the Landau-Vishkin algorithm☆35Updated 2 years ago
- CARE: Context-Aware Read Error correction for Illumina reads☆20Updated last year
- Global alignment and alignment extension☆130Updated last year
- online notebooks for a review of genome sketching☆60Updated 5 years ago