BioInt: an integrative biological object-oriented application framework and interpreter

Q4 Health Professions

International Journal of Bioinformatics Research and Applications Pub Date : 2015-05-01 DOI:10.1504/IJBRA.2015.069195

Sanket Desai, P. Burra

引用次数: 4

Abstract

BioInt, a biological programming application framework and interpreter, is an attempt to equip the researchers with seamless integration, efficient extraction and effortless analysis of the data from various biological databases and algorithms. Based on the type of biological data, algorithms and related functionalities, a biology-specific framework was developed which has nine modules. The modules are a compilation of numerous reusable BioADTs. This software ecosystem containing more than 450 biological objects underneath the interpreter makes it flexible, integrative and comprehensive. Similar to Python, BioInt eliminates the compilation and linking steps cutting the time significantly. The researcher can write the scripts using available BioADTs (following C++ syntax) and execute them interactively or use as a command line application. It has features that enable automation, extension of the framework with new/external BioADTs/libraries and deployment of complex work flows.

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BioInt:一个集成的生物面向对象的应用程序框架和解释器

BioInt是一个生物编程应用框架和解释器，旨在使研究人员能够无缝集成、高效提取和轻松分析来自各种生物数据库和算法的数据。根据生物数据的类型、算法和相关功能，开发了一个包含九个模块的生物专用框架。这些模块是许多可重复使用的bioadt的汇编。这个包含450多个生物对象的软件生态系统使其灵活、综合、全面。与Python类似，BioInt消除了编译和链接步骤，大大减少了时间。研究人员可以使用可用的BioADTs(遵循c++语法)编写脚本，并以交互方式执行它们或作为命令行应用程序使用。它具有支持自动化、使用新的/外部bioadt /库扩展框架以及部署复杂工作流的功能。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

International Journal of Bioinformatics Research and Applications Health Professions-Health Information Management

CiteScore

0.60

自引率

0.00%

发文量

期刊介绍： Bioinformatics is an interdisciplinary research field that combines biology, computer science, mathematics and statistics into a broad-based field that will have profound impacts on all fields of biology. The emphasis of IJBRA is on basic bioinformatics research methods, tool development, performance evaluation and their applications in biology. IJBRA addresses the most innovative developments, research issues and solutions in bioinformatics and computational biology and their applications. Topics covered include Databases, bio-grid, system biology Biomedical image processing, modelling and simulation Bio-ontology and data mining, DNA assembly, clustering, mapping Computational genomics/proteomics Silico technology: computational intelligence, high performance computing E-health, telemedicine Gene expression, microarrays, identification, annotation Genetic algorithms, fuzzy logic, neural networks, data visualisation Hidden Markov models, machine learning, support vector machines Molecular evolution, phylogeny, modelling, simulation, sequence analysis Parallel algorithms/architectures, computational structural biology Phylogeny reconstruction algorithms, physiome, protein structure prediction Sequence assembly, search, alignment Signalling/computational biomedical data engineering Simulated annealing, statistical analysis, stochastic grammars.