HOMER-A

HOMER-A provides a C++ library for protein sequence and structure representation, manipulation, and prediction to support development of protein structure prediction methods.

Key Features:

• Sequence and structure representation: Provides data structures and routines for representing and manipulating protein sequences and three-dimensional structures.
• Application examples: Includes examples for statistical energy potentials, profile-profile sequence alignments, and ab initio loop modeling.
• Performance optimization: Optimized for computational efficiency through extensive use in publications and research applications.

Scientific Applications:

• Statistical energy potentials: Facilitates evaluation of protein stability and interactions using statistical energy potentials.
• Profile-profile sequence alignments: Supports profile-profile alignments for improved sequence comparison and homology detection.
• Ab initio loop modeling: Enables prediction of protein loop regions via ab initio loop modeling approaches.

Methodology:

Implemented as a modular C++ library that enables integration of various computational techniques.