Quantiprot - a Python package for quantitative analysis of protein sequences

Area of Science:

• Bioinformatics
• Computational Biology
• Protein Science

Background:

• Traditional protein sequence analysis relies heavily on substitution matrices and alignments.
• Quantitative characterization offers a complementary approach, defining a multidimensional solution space for sequence comparison and interpretation.

Purpose of the Study:

• To introduce Quantiprot, a Python package for quantitative characterization of protein sequences.
• To provide a simple and consistent interface for various quantitative analysis methods.

Main Methods:

• Quantiprot calculates dozens of sequence characteristics directly or using amino acid physicochemical properties.
• The package includes basic measures, quantitative analysis of recurrence and determinism, n-gram distribution, and Zipf's law coefficient calculation.

Main Results:

• Quantiprot provides a versatile tool for in-depth protein sequence analysis.
• The software facilitates the calculation of diverse quantitative properties from protein sequences.

Conclusions:

• Quantiprot supports alignment-free similarity searches and clustering of large or divergent sequence sets.
• The defined feature space aids comparative studies of protein families/organisms and evaluation of generative models.