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Author: Mariano Et Al.
Publisher: Clube de Autores
ISBN:
Category : Science
Languages : pt-BR
Pages : 253
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Book Description
Este é o primeiro livro da série Introdução à Programação para Bioinformática . Nesta edição abordaremos a linguagem de programação Python e a biblioteca Biopython. Assim, este livro se destina a profissionais de diversas formações que necessitem analisar dados biológicos, tais como bioinformatas, biólogos, geneticistas, biomédicos, microbiologistas, físicos, químicos e até mesmo a profissionais de tecnologia da informação. Esse livro se destina a todo aquele que quer se aventurar no universo da Bioinformática e deseja ter um guia para seus primeiros passos na programação para Bioinformática. Boa parte das pessoas que adentram o mundo da programação acredita que programar seja difícil. Talvez realmente seja no começo, mas quando se começa a praticar, se torna algo simples e natural. Programar ajuda a aperfeiçoar o raciocínio lógico, as habilidades analíticas e, acima de tudo, programar é muito divertido! Tentaremos explicar de maneira simples e didática os princípios básicos de programação através da linguagem Python. Em seguida, aprenderemos o básico do uso da biblioteca Biopython para análise de dados biológicos. Este livro não tem por objetivo apresentar métodos avançados para análises de dados biológicos, mas sim apresentar os conceitos básicos de programação, uma visão geral da biblioteca Biopython, e acima de tudo, incentivá-los a estudar mais sobre programação e ir mais além. Boa leitura!
Author: Mariano Et Al.
Publisher: Clube de Autores
ISBN:
Category : Science
Languages : pt-BR
Pages : 253
Get Book Here
Book Description
Este é o primeiro livro da série Introdução à Programação para Bioinformática . Nesta edição abordaremos a linguagem de programação Python e a biblioteca Biopython. Assim, este livro se destina a profissionais de diversas formações que necessitem analisar dados biológicos, tais como bioinformatas, biólogos, geneticistas, biomédicos, microbiologistas, físicos, químicos e até mesmo a profissionais de tecnologia da informação. Esse livro se destina a todo aquele que quer se aventurar no universo da Bioinformática e deseja ter um guia para seus primeiros passos na programação para Bioinformática. Boa parte das pessoas que adentram o mundo da programação acredita que programar seja difícil. Talvez realmente seja no começo, mas quando se começa a praticar, se torna algo simples e natural. Programar ajuda a aperfeiçoar o raciocínio lógico, as habilidades analíticas e, acima de tudo, programar é muito divertido! Tentaremos explicar de maneira simples e didática os princípios básicos de programação através da linguagem Python. Em seguida, aprenderemos o básico do uso da biblioteca Biopython para análise de dados biológicos. Este livro não tem por objetivo apresentar métodos avançados para análises de dados biológicos, mas sim apresentar os conceitos básicos de programação, uma visão geral da biblioteca Biopython, e acima de tudo, incentivá-los a estudar mais sobre programação e ir mais além. Boa leitura!
Author: Sebastian Bassi
Publisher: CRC Press
ISBN: 1351976958
Category : Mathematics
Languages : en
Pages : 423
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Book Description
In today's data driven biology, programming knowledge is essential in turning ideas into testable hypothesis. Based on the author’s extensive experience, Python for Bioinformatics, Second Edition helps biologists get to grips with the basics of software development. Requiring no prior knowledge of programming-related concepts, the book focuses on the easy-to-use, yet powerful, Python computer language. This new edition is updated throughout to Python 3 and is designed not just to help scientists master the basics, but to do more in less time and in a reproducible way. New developments added in this edition include NoSQL databases, the Anaconda Python distribution, graphical libraries like Bokeh, and the use of Github for collaborative development.
Author: Miguel Rocha
Publisher: Academic Press
ISBN: 0128125217
Category : Technology & Engineering
Languages : en
Pages : 402
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Book Description
Bioinformatics Algorithms: Design and Implementation in Python provides a comprehensive book on many of the most important bioinformatics problems, putting forward the best algorithms and showing how to implement them. The book focuses on the use of the Python programming language and its algorithms, which is quickly becoming the most popular language in the bioinformatics field. Readers will find the tools they need to improve their knowledge and skills with regard to algorithm development and implementation, and will also uncover prototypes of bioinformatics applications that demonstrate the main principles underlying real world applications. - Presents an ideal text for bioinformatics students with little to no knowledge of computer programming - Based on over 12 years of pedagogical materials used by the authors in their own classrooms - Features a companion website with downloadable codes and runnable examples (such as using Jupyter Notebooks) and exercises relating to the book
Author: Girish Suryanarayana
Publisher: Morgan Kaufmann
ISBN: 0128016469
Category : Computers
Languages : en
Pages : 259
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Book Description
Awareness of design smells – indicators of common design problems – helps developers or software engineers understand mistakes made while designing, what design principles were overlooked or misapplied, and what principles need to be applied properly to address those smells through refactoring. Developers and software engineers may "know" principles and patterns, but are not aware of the "smells" that exist in their design because of wrong or mis-application of principles or patterns. These smells tend to contribute heavily to technical debt – further time owed to fix projects thought to be complete – and need to be addressed via proper refactoring.Refactoring for Software Design Smells presents 25 structural design smells, their role in identifying design issues, and potential refactoring solutions. Organized across common areas of software design, each smell is presented with diagrams and examples illustrating the poor design practices and the problems that result, creating a catalog of nuggets of readily usable information that developers or engineers can apply in their projects. The authors distill their research and experience as consultants and trainers, providing insights that have been used to improve refactoring and reduce the time and costs of managing software projects. Along the way they recount anecdotes from actual projects on which the relevant smell helped address a design issue. - Contains a comprehensive catalog of 25 structural design smells (organized around four fundamental designprinciples) that contribute to technical debt in software projects - Presents a unique naming scheme for smells that helps understand the cause of a smell as well as pointstoward its potential refactoring - Includes illustrative examples that showcase the poor design practices underlying a smell and the problemsthat result - Covers pragmatic techniques for refactoring design smells to manage technical debt and to create and maintainhigh-quality software in practice - Presents insightful anecdotes and case studies drawn from the trenches of real-world projects
Author: Mitchell L Model
Publisher: "O'Reilly Media, Inc."
ISBN: 1449382908
Category : Science
Languages : en
Pages : 526
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Book Description
Powerful, flexible, and easy to use, Python is an ideal language for building software tools and applications for life science research and development. This unique book shows you how to program with Python, using code examples taken directly from bioinformatics. In a short time, you'll be using sophisticated techniques and Python modules that are particularly effective for bioinformatics programming. Bioinformatics Programming Using Python is perfect for anyone involved with bioinformatics -- researchers, support staff, students, and software developers interested in writing bioinformatics applications. You'll find it useful whether you already use Python, write code in another language, or have no programming experience at all. It's an excellent self-instruction tool, as well as a handy reference when facing the challenges of real-life programming tasks. Become familiar with Python's fundamentals, including ways to develop simple applications Learn how to use Python modules for pattern matching, structured text processing, online data retrieval, and database access Discover generalized patterns that cover a large proportion of how Python code is used in bioinformatics Learn how to apply the principles and techniques of object-oriented programming Benefit from the "tips and traps" section in each chapter
Author: Donald R. Forsdyke
Publisher: Springer Science & Business Media
ISBN: 1441977716
Category : Science
Languages : en
Pages : 511
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Book Description
Books on bioinformatics which began appearing in the mid 80s primarily served gene-hunters, and biologists who wished to construct family trees showing tidy lines of descent. Given the great pharmaceutical industry interest in genes, this trend has continued in most subsequent texts. These deal extensively with the exciting topic of gene discovery and searching databases, but hardly consider genomes as information channels through which multiple forms and levels of information, including genic information, have passed through the generations.
Author: Ken Youens-Clark
Publisher: "O'Reilly Media, Inc."
ISBN: 1098100859
Category : Computers
Languages : en
Pages : 457
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Book Description
Life scientists today urgently need training in bioinformatics skills. Too many bioinformatics programs are poorly written and barely maintained--usually by students and researchers who've never learned basic programming skills. This practical guide shows postdoc bioinformatics professionals and students how to exploit the best parts of Python to solve problems in biology while creating documented, tested, reproducible software. Ken Youens-Clark, author of Tiny Python Projects (Manning), demonstrates not only how to write effective Python code but also how to use tests to write and refactor scientific programs. You'll learn the latest Python features and toolsâ??including linters, formatters, type checkers, and testsâ??to create documented and tested programs. You'll also tackle 14 challenges in Rosalind, a problem-solving platform for learning bioinformatics and programming. Create command-line Python programs to document and validate parameters Write tests to verify refactor programs and confirm they're correct Address bioinformatics ideas using Python data structures and modules such as Biopython Create reproducible shortcuts and workflows using makefiles Parse essential bioinformatics file formats such as FASTA and FASTQ Find patterns of text using regular expressions Use higher-order functions in Python like filter(), map(), and reduce()
Author: Yihui Xie
Publisher: CRC Press
ISBN: 1351792601
Category : Mathematics
Languages : en
Pages : 140
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Book Description
bookdown: Authoring Books and Technical Documents with R Markdown presents a much easier way to write books and technical publications than traditional tools such as LaTeX and Word. The bookdown package inherits the simplicity of syntax and flexibility for data analysis from R Markdown, and extends R Markdown for technical writing, so that you can make better use of document elements such as figures, tables, equations, theorems, citations, and references. Similar to LaTeX, you can number and cross-reference these elements with bookdown. Your document can even include live examples so readers can interact with them while reading the book. The book can be rendered to multiple output formats, including LaTeX/PDF, HTML, EPUB, and Word, thus making it easy to put your documents online. The style and theme of these output formats can be customized. We used books and R primarily for examples in this book, but bookdown is not only for books or R. Most features introduced in this book also apply to other types of publications: journal papers, reports, dissertations, course handouts, study notes, and even novels. You do not have to use R, either. Other choices of computing languages include Python, C, C++, SQL, Bash, Stan, JavaScript, and so on, although R is best supported. You can also leave out computing, for example, to write a fiction. This book itself is an example of publishing with bookdown and R Markdown, and its source is fully available on GitHub.
Author: Ana L.C. Bazzan
Publisher: Springer Science & Business Media
ISBN: 3540855564
Category : Computers
Languages : en
Pages : 191
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Book Description
This book constitutes the refereed proceedings of the Third Brazilian Symposium on Bioinformatics, BSB 2008, held in Sao Paulo, Brazil, in August 2008 - co-located with IWGD 2008, the International Workshop on Genomic Databases. The 14 revised full papers and 5 extended abstracts were carefully reviewed and selected from 41 submissions. The papers address a broad range of current topics in computational biology and bioinformatics featuring original research in computer science, mathematics and statistics as well as in molecular biology, biochemistry, genetics, medicine, microbiology and other life sciences.
Author: Tiago Antao
Publisher: Packt Publishing Ltd
ISBN: 1789349982
Category : Computers
Languages : en
Pages : 352
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Book Description
Discover modern, next-generation sequencing libraries from Python ecosystem to analyze large amounts of biological data Key Features Perform complex bioinformatics analysis using the most important Python libraries and applications Implement next-generation sequencing, metagenomics, automating analysis, population genetics, and more Explore various statistical and machine learning techniques for bioinformatics data analysis Book Description Bioinformatics is an active research field that uses a range of simple-to-advanced computations to extract valuable information from biological data. This book covers next-generation sequencing, genomics, metagenomics, population genetics, phylogenetics, and proteomics. You'll learn modern programming techniques to analyze large amounts of biological data. With the help of real-world examples, you'll convert, analyze, and visualize datasets using various Python tools and libraries. This book will help you get a better understanding of working with a Galaxy server, which is the most widely used bioinformatics web-based pipeline system. This updated edition also includes advanced next-generation sequencing filtering techniques. You'll also explore topics such as SNP discovery using statistical approaches under high-performance computing frameworks such as Dask and Spark. By the end of this book, you'll be able to use and implement modern programming techniques and frameworks to deal with the ever-increasing deluge of bioinformatics data. What you will learn Learn how to process large next-generation sequencing (NGS) datasets Work with genomic dataset using the FASTQ, BAM, and VCF formats Learn to perform sequence comparison and phylogenetic reconstruction Perform complex analysis with protemics data Use Python to interact with Galaxy servers Use High-performance computing techniques with Dask and Spark Visualize protein dataset interactions using Cytoscape Use PCA and Decision Trees, two machine learning techniques, with biological datasets Who this book is for This book is for Data data Scientistsscientists, Bioinformatics bioinformatics analysts, researchers, and Python developers who want to address intermediate-to-advanced biological and bioinformatics problems using a recipe-based approach. Working knowledge of the Python programming language is expected.
