seqan / lemon

Clone of the latest release of the lemon library (only the headers)

SeqAn - The Library for Sequence Analysis

NOTE SeqAn3 is out and hosted in a different repository
We recommend using SeqAn3 for new applications.

What Is SeqAn?

SeqAn is an open source C++ library of efficient algorithms and data structures for the analysis of sequences with the focus on biological data. Our library applies a unique generic design that guarantees high performance, generality, extensibility, and integration with other libraries. SeqAn is easy to use and simplifies the development of new software tools with a minimal loss of performance.

License

The SeqAn library itself, the tests and demos are licensed under the very permissive 3-clause BSD License. The licenses for the applications themselves can be found in the LICENSE files.

Prerequisites

Older compiler versions might work but are neither supported nor tested.

Linux, macOS, FreeBSD

• GCC ≥ 11
• Clang/LLVM ≥ 15
• Intel oneAPI C++ Compiler 2024.0.2 (IntelLLVM)

Windows

• Visual C++ ≥ 17.0 / Visual Studio ≥ 2022

Architecture support

• Intel/AMD platforms, including optimisations for modern instruction sets (POPCNT, SSE4, AVX2, AVX512)
• All Debian release architectures supported, including most ARM and all PowerPC platforms.

Build system

• To build tests, demos, and official SeqAn applications you also need CMake ≥ 3.12.

Some official applications might have additional requirements or only work on a subset of platforms.

Documentation Resources

• Getting Started
• Manual
• Tutorial
• How-Tos
• API Documentation (stable)

Contact

• Mailing List
• GitHub Project (issues, source code)