Projects Using SIMDe

The following projects are known to use SIMDe:

• Bowtie 2 — an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences.
• HH-SUITE ­— an open-source software package for sensitive protein sequence searching based on the pairwise alignment of hidden Markov models (HMMs).
• LightZone — professional-level digital darkroom and photo editor for Mac, Windows, and Linux. It includes RAW processing and editing.
• MACS — Model-based Analysis for ChIP-Seq
• MMseqs2 — ultra fast and sensitive sequence search and clustering suite
• OBS Studio — free and open source software for live streaming and screen recording
• parasail — Pairwise Sequence Alignment Library
• pbcopper — The pbcopper library provides a suite of data structures, algorithms, and utilities for PacBio C++ applications.
• plink2 — whole-genome association analysis toolset
• Spoa ­— c++ implementation of the partial order alignment algorithm which is used to generate consensus sequences
• Surge — an open source digital synthesizer
• wabt - The WebAssembly Binary Toolkit, a suite of tools for WebAssembly
• scikit-bio - Python package providing data structures, algorithms, and educational resources for bioinformatics.
• vg - variation graph data structures, interchange formats, alignment, genotyping, and variant calling methods

If you are using SIMDe, please add your project to the list.

Additionally, distro patches exist for several additional projects; see Debian's wiki for an incomplete list.