🚀 Pre-release: SequenceAligner v0.9.0 (Beta) Tag: v0.9.0-beta Status: Pre-release (Testing & downstream modules pending) Author: Abhinav Mishra ✨ Features Implemented ✅ Three core alignment algorithms: LCS (Longest Common Subsequence) Global Alignment (Needleman–Wunsch) Local Alignment (Smith–Waterman) ✅ FASTA input support with header-stripping ✅ Color-coded alignment output with position-aware formatting ✅ Modular and versioned implementation (main_v1.cpp, main_v2.cpp, main_v3.cpp) ✅ CMake-based build system with support for C++17 ✅ MkDocs documentation and Doxygen API reference hosted via GitHub Pages ✅ Command-line usability with clear usage instructions ⚠️ Known Limitations / To Be Done ❌ Testing coverage and validation for main_v2.cpp and main_v3.cpp is not yet complete ❌ No built-in scoring matrix customization (e.g., BLOSUM/PAM) ❌ Downstream analysis modules (e.g., result parsing, statistical summaries) are not yet implemented ❌ No graphical output or export of visualizations yet 📦 Installation git clone https://github.com/bibymaths/SequenceAligner.git cd SequenceAligner mkdir build && cd build cmake .. make 🧪 Quick Usage ./aligner_v1 files/seq1.fasta files/seq2.fasta 2 📚 Documentation Main docs: https://bibymaths.github.io/SequenceAligner/ API docs: https://bibymaths.github.io/SequenceAligner/api/index.html 📄 License BSD 3-Clause License © 2025 Abhinav Mishra What's Changed Added docs, make config, and api references by @bibymaths in https://github.com/bibymaths/SequenceAligner/pull/1 New Contributors @bibymaths made their first contribution in https://github.com/bibymaths/SequenceAligner/pull/1 Full Changelog: https://github.com/bibymaths/SequenceAligner/commits/v0.9.0-beta