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ConKit: a python interface to contact predictions.

Felix Simkovic1, Jens M H Thomas1, Daniel J Rigden1

  • 1Department of Biochemistry, Institute of Integrative Biology, University of Liverpool, Liverpool, UK.

Bioinformatics (Oxford, England)
|April 4, 2017
PubMed
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ConKit is a new Python interface for analyzing protein residue contact predictions. It facilitates format conversion and analysis of sequence alignments, simplifying complex bioinformatics tasks.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Structural Biology

Background:

  • Recent advancements in protein residue contact prediction have resulted in numerous new algorithms and file formats.
  • Managing and analyzing these diverse data types presents a significant challenge in bioinformatics.

Purpose of the Study:

  • To introduce ConKit, an open-source Python interface designed to streamline the analysis of protein residue contact predictions.
  • To provide a modular and extensible tool for facile conversion between various contact prediction file formats.

Main Methods:

  • ConKit offers a Python interface for handling contact prediction data.
  • The tool supports conversion between different file formats.
  • It enables analysis of sequence alignments and contact prediction sets.

Related Experiment Videos

Main Results:

  • ConKit simplifies the integration and analysis of data from diverse protein contact prediction methods.
  • The interface allows for easy manipulation and comparison of prediction results.

Conclusions:

  • ConKit addresses the need for a unified tool in the rapidly evolving field of protein contact prediction.
  • Its open-source nature and modular design promote extensibility and community contribution.