ConKit

ConKit provides a modular Python interface for conversion, analysis, and evaluation of protein residue contact prediction and sequence alignment data to integrate diverse file formats and assess contact-prediction methods.

Key Features:

• Format Conversion: Converts between various file formats used for sequence alignments and contact predictions.
• Modular Design: Implements a modular architecture that exposes components for extension without modifying the core codebase.
• Extensibility: Supports development of custom modules or plugins to add support for new prediction methods or file formats.

Scientific Applications:

• Sequence Alignment Analysis: Provides programmatic interfaces for analyzing sequence alignments to inform evolutionary relationships and functional annotation of proteins.
• Contact Prediction Evaluation: Enables evaluation of contact prediction sets to assess the accuracy and reliability of different contact-prediction methods.

Methodology:

Implemented as an open-source, modular and extensible Python interface that performs conversion between alignment and contact-prediction file formats and provides programmatic access for analysis and evaluation of sequence alignments and contact-prediction sets.