UCLA-VAST / minimap2-accelerationLinks
Hardware Acceleration of Long Read Pairwise Overlapping in Genome Sequencing: Open Source Repository
☆34Updated last year
Alternatives and similar repositories for minimap2-acceleration
Users that are interested in minimap2-acceleration are comparing it to the libraries listed below
Sorting:
- SneakySnake is the first and the only pre-alignment filtering algorithm that works efficiently and fast on modern CPU, FPGA, and GPU arch…☆54Updated 2 years ago
- Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…☆38Updated 2 years ago
- BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy…☆45Updated 2 years ago
- Shouji is fast and accurate pre-alignment filter for banded sequence alignment calculation. Described in the Bioinformatics journal paper…☆18Updated 6 years ago
- GPU implementation of the Wavefront Alignment Algorithm for global, gap-affine, pairwise sequence alginment☆39Updated 9 months ago
- LOGAN: High-Performance Multi-GPU X-Drop Long-Read Alignment.☆30Updated 3 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…☆63Updated last month
- ☆26Updated 5 years ago
- GFA visualizer, GPU-accelerated using Vulkan☆75Updated 3 years 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…☆28Updated 5 years ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆56Updated last year
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆23Updated 5 months ago
- Falcon Accelerated Genomics Pipelines☆15Updated 6 years ago
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆52Updated 3 years ago
- mrsFAST: micro-read substitution-only Fast Alignment Search Tool☆28Updated 5 years ago
- Global alignment and alignment extension☆142Updated 2 years ago
- Slow5tools is a toolkit for converting (FAST5 <-> SLOW5), compressing, viewing, indexing and manipulating data in SLOW5 format.☆101Updated 2 weeks ago
- AirLift is a tool that updates mapped reads from one reference genome to another. Unlike existing tools, It accounts for regions not shar…☆28Updated last year
- A Scalable GPU-Based Whole Genome Aligner, published in SC20: https://doi.ieeecomputersociety.org/10.1109/SC41405.2020.00043☆69Updated last year
- slow5lib is a software library for reading & writing SLOW5 files.☆47Updated 2 weeks ago
- Building upon BWA-MEM2, this repository includes performance improvements to the seeding and mate-rescue steps.☆13Updated 4 years ago
- Assemblies from HPP Year 1 production☆80Updated 2 years ago
- ☆12Updated 7 years ago
- Analysis pipelines from Oxford Nanopore Technologies' Research Division☆48Updated 5 years ago
- Hardware Accelerated Read Until☆17Updated 4 months ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆70Updated 3 years ago
- Complements Minimap2 for a fast and efficient Read-Until pipeline☆13Updated 2 years ago
- PBSIM2: a simulator for long read sequencers with a novel generative model of quality scores☆74Updated 2 years ago
- Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs☆234Updated this week
- A streaming method for mapping nanopore raw signals☆32Updated 4 years ago