CMU-SAFARI / SneakySnake

SneakySnake:snake: is the first and the only pre-alignment filtering algorithm that works efficiently and fast on modern CPU, FPGA, and GPU architectures. It greatly (by more than two orders of magnitude) expedites sequence alignment calculation for both short and long reads. Described in the Bioinformatics (2020) by Alser et al. https://arxiv.org/abs/1910.09020.

Date Created 2019-09-22 (5 years ago)

Commits 73 (last one about a year ago)

Stargazers 51 (0 this week)

Watchers 9 (0 this week)

Forks 11

License gpl-3.0

Ranking

RepositoryStats indexes 628,089 repositories, of these CMU-SAFARI/SneakySnake is ranked #481,888 (23rd percentile) for total stargazers, and #217,180 for total watchers. Github reports the primary language for this repository as VHDL, for repositories using this language it is ranked #147/198.

CMU-SAFARI/SneakySnake is also tagged with popular topics, for these it's ranked: gpu (#820/959), fpga (#422/509)

All Topics

gpu fpga edlib minimap2 long-reads short-reads smith-waterman needleman-wunsch sequence-aligner sequence-alignment wavefront-alignment hardware-accelerator pre-alignment-filtering

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Recent Commit History

9 commits on the default branch (master) since jan '22

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Languages

The primary language is VHDL but there's also others...

updated: 2025-03-07 @ 01:50pm, id: 210119279 / R_kgDODIYqbw