Journal Article

Biotite: new tools for a versatile Python bioinformatics library

Islam, Faisal, Greil, Maximilian, Hamacher, Kay, Müller, Tom David, Anter, Jacob Marcel, Bauer, Daniel, Kunzmann, Patrick, Krumbach, Jan Hendrik

2023

Overview

Background Biotite is a program library for sequence and structural bioinformatics written for the Python programming language. It implements widely used computational methods into a consistent and accessible package. This allows for easy combination of various data analysis, modeling and simulation methods. Results This article presents major functionalities introduced into Biotite since its original publication. The fields of application are shown using concrete examples. We show that the computational performance of Biotite for bioinformatics tasks is comparable to individual, special purpose software systems specifically developed for the respective single task. Conclusions The results show that Biotite can be used as program library to either answer specific bioinformatics questions and simultaneously allow the user to write entire, self-contained software applications with sufficient performance for general application.

• Publisher: BioMed Central,BioMed Central Ltd,Springer Nature B.V,BMC
• Subject: Algorithms / alpha-Globins - chemistry / Applications programs / Applications software / Arrays / Base Sequence / Bioinformatics / Biomedical and Life Sciences / Biotite / Computational biology / Computational Biology/Bioinformatics / Computer Appl. in Life Sciences / Computer applications / Computer programs / Computer Simulation / Computer-generated environments / Data analysis / Data models / Humans / Libraries / Life Sciences / Methods / Microarrays / Models, Molecular / Molecular biology / Open source / Programming Languages / Proteins - chemistry / Python / Python (Programming language) / Sequence Alignment / Sequence analysis / Simulation methods / Software / Structural bioinformatics