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Python Programming for Biology

Python Programming for Biology Author Tim J. Stevens
ISBN-10 9780521895835
Release 2015-02-12
Pages 711
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This book introduces Python as a powerful tool for the investigation of problems in computational biology, for novices and experienced programmers alike.



Python Programming for Biology

Python Programming for Biology Author Tim J. Stevens
ISBN-10 9781316194140
Release 2015-02-12
Pages
Download Link Click Here

Do you have a biological question that could be readily answered by computational techniques, but little experience in programming? Do you want to learn more about the core techniques used in computational biology and bioinformatics? Written in an accessible style, this guide provides a foundation for both newcomers to computer programming and those interested in learning more about computational biology. The chapters guide the reader through: a complete beginners' course to programming in Python, with an introduction to computing jargon; descriptions of core bioinformatics methods with working Python examples; scientific computing techniques, including image analysis, statistics and machine learning. This book also functions as a language reference written in straightforward English, covering the most common Python language elements and a glossary of computing and biological terms. This title will teach undergraduates, postgraduates and professionals working in the life sciences how to program with Python, a powerful, flexible and easy-to-use language.



Python Programming for Biology

Python Programming for Biology Author Tim J. Stevens
ISBN-10 0521720095
Release 2015-02-12
Pages 711
Download Link Click Here

Do you have a biological question that could be readily answered by computational techniques, but little experience in programming? Do you want to learn more about the core techniques used in computational biology and bioinformatics? Written in an accessible style, this guide provides a foundation for both newcomers to computer programming and those interested in learning more about computational biology. The chapters guide the reader through: a complete beginners' course to programming in Python, with an introduction to computing jargon; descriptions of core bioinformatics methods with working Python examples; scientific computing techniques, including image analysis, statistics and machine learning. This book also functions as a language reference written in straightforward English, covering the most common Python language elements and a glossary of computing and biological terms. This title will teach undergraduates, postgraduates and professionals working in the life sciences how to program with Python, a powerful, flexible and easy-to-use language.



Python for Bioinformatics

Python for Bioinformatics Author Jason Kinser
ISBN-10 9781449613075
Release 2010-10-25
Pages 417
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Bioinformatics is a growing field that attracts researchers from many different backgrounds who are unfamiliar with the algorithms commonly used in the field. Python for Bioinformatics provides a clear introduction to the Python programming language and instructs beginners on the development of simple programming exercises . Ideal for those with some knowledge of computer programming languages, this book emphasizes Python syntax and methodologies. The text is divided into three complete sections; the first provides an explanation of general Python programming, the second includes a detailed discussion of the Python tools typically used in bioinformatics including clustering, associative memories, and mathematical analysis techniques, and the third section demonstrates how these tools are implemented through numerous applications.



Bioinformatics Programming Using Python

Bioinformatics Programming Using Python Author Mitchell L Model
ISBN-10 1449382908
Release 2009-12-08
Pages 528
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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



Computing for Biologists

Computing for Biologists Author Ran Libeskind-Hadas
ISBN-10 9781316061336
Release 2014-09-22
Pages
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Computing is revolutionizing the practice of biology. This book, which assumes no prior computing experience, provides students with the tools to write their own Python programs and to understand fundamental concepts in computational biology and bioinformatics. Each major part of the book begins with a compelling biological question, followed by the algorithmic ideas and programming tools necessary to explore it: the origins of pathogenicity are examined using gene finding, the evolutionary history of sex determination systems is studied using sequence alignment, and the origin of modern humans is addressed using phylogenetic methods. In addition to providing general programming skills, this book explores the design of efficient algorithms, simulation, NP-hardness, and the maximum likelihood method, among other key concepts and methods. Easy-to-read and designed to equip students with the skills to write programs for solving a range of biological problems, the book is accompanied by numerous programming exercises, available at www.cs.hmc.edu/CFB.



Practical Computing for Biologists

Practical Computing for Biologists Author Steven Harold David Haddock
ISBN-10 0878933913
Release 2011
Pages 538
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To help with the increasingly large data sets that many scientists deal with, this book illustrates how to use many freely available computing tools to work more powerfully and effectively. The book was born out of the authors' experiences developing tools for their research and to fix other biologist's computational problems.



Python for Biologists

Python for Biologists Author Martin Jones
ISBN-10 1492346136
Release 2013
Pages 229
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Python for biologists is a complete programming course for beginners that will give you the skills you need to tackle common biological and bioinformatics problems.



Python for Bioinformatics Second Edition

Python for Bioinformatics  Second Edition Author Sebastian Bassi
ISBN-10 9781351976954
Release 2017-08-07
Pages 424
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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.



Bioinformatics Data Skills

Bioinformatics Data Skills Author Vince Buffalo
ISBN-10 9781449367510
Release 2015-07-01
Pages 538
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Learn the data skills necessary for turning large sequencing datasets into reproducible and robust biological findings. With this practical guide, you’ll learn how to use freely available open source tools to extract meaning from large complex biological data sets. At no other point in human history has our ability to understand life’s complexities been so dependent on our skills to work with and analyze data. This intermediate-level book teaches the general computational and data skills you need to analyze biological data. If you have experience with a scripting language like Python, you’re ready to get started. Go from handling small problems with messy scripts to tackling large problems with clever methods and tools Process bioinformatics data with powerful Unix pipelines and data tools Learn how to use exploratory data analysis techniques in the R language Use efficient methods to work with genomic range data and range operations Work with common genomics data file formats like FASTA, FASTQ, SAM, and BAM Manage your bioinformatics project with the Git version control system Tackle tedious data processing tasks with with Bash scripts and Makefiles



Managing Your Biological Data with Python

Managing Your Biological Data with Python Author Allegra Via
ISBN-10 9781439880944
Release 2014-03-18
Pages 560
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Take Control of Your Data and Use Python with Confidence Requiring no prior programming experience, Managing Your Biological Data with Python empowers biologists and other life scientists to work with biological data on their own using the Python language. The book teaches them not only how to program but also how to manage their data. It shows how to read data from files in different formats, analyze and manipulate the data, and write the results to a file or computer screen. The first part of the text introduces the Python language and teaches readers how to write their first programs. The second part presents the basic elements of the language, enabling readers to write small programs independently. The third part explains how to create bigger programs using techniques to write well-organized, efficient, and error-free code. The fourth part on data visualization shows how to plot data and draw a figure for an article or slide presentation. The fifth part covers the Biopython programming library for reading and writing several biological file formats, querying the NCBI online databases, and retrieving biological records from the web. The last part provides a cookbook of 20 specific programming "recipes," ranging from secondary structure prediction and multiple sequence alignment analyses to superimposing protein three-dimensional structures. Tailoring the programming topics to the everyday needs of biologists, the book helps them easily analyze data and ultimately make better discoveries. Every piece of code in the text is aimed at solving real biological problems.



Bioinformatics and Functional Genomics

Bioinformatics and Functional Genomics Author Jonathan Pevsner
ISBN-10 9781118581780
Release 2015-11-02
Pages 1160
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Bioinformatics and Functional Genomics, Third Edition is the latest revision of this bestselling and indispensible text book. Thoroughly updated to encompass the latest advances in the field the book retains its broad and accessible approach. Divided into three parts the book deals first with bioinformatics, the use of computer databases and computer algorithms in the study of proteins and genes. The first section includes sequence alignment, database searches and phylogeny. The second section of the book focuses on functional genomics and includes approaches such as gene expression profiling and proteomics that are used to study cellular function. The final part of the book deals with genomics which is the study of the collection of DNA that comprises an organism, using the tools of bioinformatics. Bioinformatics and Functional Genomics, Third Edition will serve as an excellent single-source textbook for advanced undergraduate and beginning graduate-level courses in the biological sciences and computer sciences. It will also provide an essential resource for biologists in a broad variety of disciplines who use the tools of bioinformatics and genomics to study particular research problems; bioinformaticists and computer scientists who develop computer algorithms and databases; and medical researchers and clinicians who want to understand the genomic basis of viral, bacterial, parasitic, or other diseases.



Advanced Python for Biologists

Advanced Python for Biologists Author Martin O. Jones
ISBN-10 1495244377
Release 2014
Pages 267
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Advanced Python for Biologists is a programming course for workers in biology and bioinformatics who want to develop their programming skills. It starts with the basic Python knowledge outlined in Python for Biologists and introduces advanced Python tools and techniques with biological examples. You'll learn: - How to use object-oriented programming to model biological entities - How to write more robust code and programs by using Python's exception system - How to test your code using the unit testing framework - How to transform data using Python's comprehensions - How to write flexible functions and applications using functional programming - How to use Python's iteration framework to extend your own object and functions Advanced Python for Biologists is written with an emphasis on practical problem-solving and uses everyday biological examples throughout. Each section contains exercises along with solutions and detailed discussion.



UNIX and Perl to the Rescue

UNIX and Perl to the Rescue Author Keith Bradnam
ISBN-10 9781107000681
Release 2012-07-19
Pages 428
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An accessible guide to learning the key features of Unix and Perl, written with the non-programmer in mind.



Developing Bioinformatics Computer Skills

Developing Bioinformatics Computer Skills Author Cynthia Gibas
ISBN-10 1565926641
Release 2001
Pages 427
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Offers a structured approach to biological data and the computer tools needed to analyze it, covering UNIX, databases, computation, Perl, data mining, data visualization, and tailoring software to suit specific research needs.



Bioinformatics with Python Cookbook

Bioinformatics with Python Cookbook Author Tiago Antao
ISBN-10 9781783558650
Release 2015-06-25
Pages 306
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If you are either a computational biologist or a Python programmer, you will probably relate to the expression "explosive growth, exciting times". Python is arguably the main programming language for big data, and the deluge of data in biology, mostly from genomics and proteomics, makes bioinformatics one of the most exciting fields in data science. Using the hands-on recipes in this book, you'll be able to do practical research and analysis in computational biology with Python. We cover modern, next-generation sequencing libraries and explore real-world examples on how to handle real data. The main focus of the book is the practical application of bioinformatics, but we also cover modern programming techniques and frameworks to deal with the ever increasing deluge of bioinformatics data.



Introduction to Mixed Modelling

Introduction to Mixed Modelling Author N. W. Galwey
ISBN-10 9781118861820
Release 2014-08-26
Pages 504
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Mixed modelling is very useful, and easier than you think! Mixed modelling is now well established as a powerful approach to statistical data analysis. It is based on the recognition of random-effect terms in statistical models, leading to inferences and estimates that have much wider applicability and are more realistic than those otherwise obtained. Introduction to Mixed Modelling leads the reader into mixed modelling as a natural extension of two more familiar methods, regression analysis and analysis of variance. It provides practical guidance combined with a clear explanation of the underlying concepts. Like the first edition, this new edition shows diverse applications of mixed models, provides guidance on the identification of random-effect terms, and explains how to obtain and interpret best linear unbiased predictors (BLUPs). It also introduces several important new topics, including the following: Use of the software SAS, in addition to GenStat and R. Meta-analysis and the multiple testing problem. The Bayesian interpretation of mixed models. Including numerous practical exercises with solutions, this book provides an ideal introduction to mixed modelling for final year undergraduate students, postgraduate students and professional researchers. It will appeal to readers from a wide range of scientific disciplines including statistics, biology, bioinformatics, medicine, agriculture, engineering, economics, archaeology and geography. Praise for the first edition: “One of the main strengths of the text is the bridge it provides between traditional analysis of variance and regression models and the more recently developed class of mixed models...Each chapter is well-motivated by at least one carefully chosen example...demonstrating the broad applicability of mixed models in many different disciplines...most readers will likely learn something new, and those previously unfamiliar with mixed models will obtain a solid foundation on this topic.”—Kerrie Nelson University of South Carolina, in American Statistician, 2007