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mm2-fast with avx2 optimizations

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Saurabh
2021-06-29 19:18:22 -04:00
committed by Heng Li
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README.md
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### Introduction ### Introduction
mm2-fast is an accelerated implementation of minimap2 on modern CPUs. mm2-fast accelerates all three major modules of minimap2: Seeding, Chaining, and Alignment, achieving upto 3.5x speedup over minimap2. mm2-fast is an accelerated implementation of minimap2 on modern CPUs. mm2-fast accelerates all three major modules of minimap2: Seeding, Chaining, and Alignment, achieving upto 3.5x speedup over minimap2.
mm2-fast is a drop-in replacement of minimap2, providing the same functionality with the exact same output. mm2-fast is a drop-in replacement of minimap2, providing the same functionality with the exact same output.
In the current version, all the modules are optimized using **AVX-512** vectorization. For non-AVX-512 machines, mm2-fast runs as minimap2 code. In the current version, all the modules are optimized using **AVX2** and **AVX-512** vectorization. For non-AVX-512 machines, mm2-fast runs as minimap2 code.
### Usage ### Usage
```sh ```sh