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Bioinformatics Data Skills: Reproducible and Robust Research with Open Source Tools by Vince Buffalo
bioinformatics
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Algorithms
Robert Sedgewick - 1983
This book surveys the most important computer algorithms currently in use and provides a full treatment of data structures and algorithms for sorting, searching, graph processing, and string processing -- including fifty algorithms every programmer should know. In this edition, new Java implementations are written in an accessible modular programming style, where all of the code is exposed to the reader and ready to use.The algorithms in this book represent a body of knowledge developed over the last 50 years that has become indispensable, not just for professional programmers and computer science students but for any student with interests in science, mathematics, and engineering, not to mention students who use computation in the liberal arts.The companion web site, algs4.cs.princeton.edu contains An online synopsis Full Java implementations Test data Exercises and answers Dynamic visualizations Lecture slides Programming assignments with checklists Links to related material The MOOC related to this book is accessible via the "Online Course" link at algs4.cs.princeton.edu. The course offers more than 100 video lecture segments that are integrated with the text, extensive online assessments, and the large-scale discussion forums that have proven so valuable. Offered each fall and spring, this course regularly attracts tens of thousands of registrants.Robert Sedgewick and Kevin Wayne are developing a modern approach to disseminating knowledge that fully embraces technology, enabling people all around the world to discover new ways of learning and teaching. By integrating their textbook, online content, and MOOC, all at the state of the art, they have built a unique resource that greatly expands the breadth and depth of the educational experience.
Code: The Hidden Language of Computer Hardware and Software
Charles Petzold - 1999
And through CODE, we see how this ingenuity and our very human compulsion to communicate have driven the technological innovations of the past two centuries. Using everyday objects and familiar language systems such as Braille and Morse code, author Charles Petzold weaves an illuminating narrative for anyone who’s ever wondered about the secret inner life of computers and other smart machines. It’s a cleverly illustrated and eminently comprehensible story—and along the way, you’ll discover you’ve gained a real context for understanding today’s world of PCs, digital media, and the Internet. No matter what your level of technical savvy, CODE will charm you—and perhaps even awaken the technophile within.
The Elements of Computing Systems: Building a Modern Computer from First Principles
Noam Nisan - 2005
The books also provides a companion web site that provides the toold and materials necessary to build the hardware and software.
Bioinformatics For Dummies
Jean-Michel Claverie - 2003
This easy-to-follow guide leads you step by step through every bioinformatics task that can be done over the Internet. Forget long equations, computer-geek gibberish, and installing bulky programs that slow down your computer. You'll be amazed at all the things you can accomplish just by logging on and following these trusty directions. You get the tools you need to:Analyze all types of sequences Use all types of databases Work with DNA and protein sequences Conduct similarity searches Build a multiple sequence alignment Edit and publish alignments Visualize protein 3-D structures Construct phylogenetic trees This up-to-date second edition includes newly created and popular databases and Internet programs as well as multiple new genomes. It provides tips for using servers and places to seek resources to find out about what's going on in the bioinformatics world. Bioinformatics For Dummies will show you how to get the most out of your PC and the right Web tools so you'll be searching databases and analyzing sequences like a pro!
Mindstorms: Children, Computers, And Powerful Ideas
Seymour Papert - 1980
We have Mindstorms to thank for that. In this book, pioneering computer scientist Seymour Papert uses the invention of LOGO, the first child-friendly programming language, to make the case for the value of teaching children with computers. Papert argues that children are more than capable of mastering computers, and that teaching computational processes like de-bugging in the classroom can change the way we learn everything else. He also shows that schools saturated with technology can actually improve socialization and interaction among students and between students and teachers.
Learn You a Haskell for Great Good!
Miran Lipovača - 2011
Learn You a Haskell for Great Good! introduces programmers familiar with imperative languages (such as C++, Java, or Python) to the unique aspects of functional programming. Packed with jokes, pop culture references, and the author's own hilarious artwork, Learn You a Haskell for Great Good! eases the learning curve of this complex language, and is a perfect starting point for any programmer looking to expand his or her horizons. The well-known web tutorial on which this book is based is widely regarded as the best way for beginners to learn Haskell, and receives over 30,000 unique visitors monthly.
Types and Programming Languages
Benjamin C. Pierce - 2002
The study of type systems--and of programming languages from a type-theoretic perspective--has important applications in software engineering, language design, high-performance compilers, and security.This text provides a comprehensive introduction both to type systems in computer science and to the basic theory of programming languages. The approach is pragmatic and operational; each new concept is motivated by programming examples and the more theoretical sections are driven by the needs of implementations. Each chapter is accompanied by numerous exercises and solutions, as well as a running implementation, available via the Web. Dependencies between chapters are explicitly identified, allowing readers to choose a variety of paths through the material.The core topics include the untyped lambda-calculus, simple type systems, type reconstruction, universal and existential polymorphism, subtyping, bounded quantification, recursive types, kinds, and type operators. Extended case studies develop a variety of approaches to modeling the features of object-oriented languages.
Grokking Algorithms An Illustrated Guide For Programmers and Other Curious People
Aditya Y. Bhargava - 2015
The algorithms you'll use most often as a programmer have already been discovered, tested, and proven. If you want to take a hard pass on Knuth's brilliant but impenetrable theories and the dense multi-page proofs you'll find in most textbooks, this is the book for you. This fully-illustrated and engaging guide makes it easy for you to learn how to use algorithms effectively in your own programs.Grokking Algorithms is a disarming take on a core computer science topic. In it, you'll learn how to apply common algorithms to the practical problems you face in day-to-day life as a programmer. You'll start with problems like sorting and searching. As you build up your skills in thinking algorithmically, you'll tackle more complex concerns such as data compression or artificial intelligence. Whether you're writing business software, video games, mobile apps, or system utilities, you'll learn algorithmic techniques for solving problems that you thought were out of your grasp. For example, you'll be able to:Write a spell checker using graph algorithmsUnderstand how data compression works using Huffman codingIdentify problems that take too long to solve with naive algorithms, and attack them with algorithms that give you an approximate answer insteadEach carefully-presented example includes helpful diagrams and fully-annotated code samples in Python. By the end of this book, you will know some of the most widely applicable algorithms as well as how and when to use them.
Python Machine Learning
Sebastian Raschka - 2015
We are living in an age where data comes in abundance, and thanks to the self-learning algorithms from the field of machine learning, we can turn this data into knowledge. Automated speech recognition on our smart phones, web search engines, e-mail spam filters, the recommendation systems of our favorite movie streaming services – machine learning makes it all possible.Thanks to the many powerful open-source libraries that have been developed in recent years, machine learning is now right at our fingertips. Python provides the perfect environment to build machine learning systems productively.This book will teach you the fundamentals of machine learning and how to utilize these in real-world applications using Python. Step-by-step, you will expand your skill set with the best practices for transforming raw data into useful information, developing learning algorithms efficiently, and evaluating results.You will discover the different problem categories that machine learning can solve and explore how to classify objects, predict continuous outcomes with regression analysis, and find hidden structures in data via clustering. You will build your own machine learning system for sentiment analysis and finally, learn how to embed your model into a web app to share with the world
Applied Cryptography: Protocols, Algorithms, and Source Code in C
Bruce Schneier - 1993
… The book the National Security Agency wanted never to be published." –Wired Magazine "…monumental… fascinating… comprehensive… the definitive work on cryptography for computer programmers…" –Dr. Dobb's Journal"…easily ranks as one of the most authoritative in its field." —PC Magazine"…the bible of code hackers." –The Millennium Whole Earth CatalogThis new edition of the cryptography classic provides you with a comprehensive survey of modern cryptography. The book details how programmers and electronic communications professionals can use cryptography—the technique of enciphering and deciphering messages-to maintain the privacy of computer data. It describes dozens of cryptography algorithms, gives practical advice on how to implement them into cryptographic software, and shows how they can be used to solve security problems. Covering the latest developments in practical cryptographic techniques, this new edition shows programmers who design computer applications, networks, and storage systems how they can build security into their software and systems. What's new in the Second Edition? * New information on the Clipper Chip, including ways to defeat the key escrow mechanism * New encryption algorithms, including algorithms from the former Soviet Union and South Africa, and the RC4 stream cipher * The latest protocols for digital signatures, authentication, secure elections, digital cash, and more * More detailed information on key management and cryptographic implementations
Structure and Interpretation of Computer Programs
Harold Abelson - 1984
This long-awaited revision contains changes throughout the text. There are new implementations of most of the major programming systems in the book, including the interpreters and compilers, and the authors have incorporated many small changes that reflect their experience teaching the course at MIT since the first edition was published. A new theme has been introduced that emphasizes the central role played by different approaches to dealing with time in computational models: objects with state, concurrent programming, functional programming and lazy evaluation, and nondeterministic programming. There are new example sections on higher-order procedures in graphics and on applications of stream processing in numerical programming, and many new exercises. In addition, all the programs have been reworked to run in any Scheme implementation that adheres to the IEEE standard.
Introduction to Algorithms
Thomas H. Cormen - 1989
Each chapter is relatively self-contained and can be used as a unit of study. The algorithms are described in English and in a pseudocode designed to be readable by anyone who has done a little programming. The explanations have been kept elementary without sacrificing depth of coverage or mathematical rigor.
Information Theory, Inference and Learning Algorithms
David J.C. MacKay - 2002
These topics lie at the heart of many exciting areas of contemporary science and engineering - communication, signal processing, data mining, machine learning, pattern recognition, computational neuroscience, bioinformatics, and cryptography. This textbook introduces theory in tandem with applications. Information theory is taught alongside practical communication systems, such as arithmetic coding for data compression and sparse-graph codes for error-correction. A toolbox of inference techniques, including message-passing algorithms, Monte Carlo methods, and variational approximations, are developed alongside applications of these tools to clustering, convolutional codes, independent component analysis, and neural networks. The final part of the book describes the state of the art in error-correcting codes, including low-density parity-check codes, turbo codes, and digital fountain codes -- the twenty-first century standards for satellite communications, disk drives, and data broadcast. Richly illustrated, filled with worked examples and over 400 exercises, some with detailed solutions, David MacKay's groundbreaking book is ideal for self-learning and for undergraduate or graduate courses. Interludes on crosswords, evolution, and sex provide entertainment along the way. In sum, this is a textbook on information, communication, and coding for a new generation of students, and an unparalleled entry point into these subjects for professionals in areas as diverse as computational biology, financial engineering, and machine learning.
The Master Algorithm: How the Quest for the Ultimate Learning Machine Will Remake Our World
Pedro Domingos - 2015
In The Master Algorithm, Pedro Domingos lifts the veil to give us a peek inside the learning machines that power Google, Amazon, and your smartphone. He assembles a blueprint for the future universal learner--the Master Algorithm--and discusses what it will mean for business, science, and society. If data-ism is today's philosophy, this book is its bible.
The C# Programming Yellow Book
Rob Miles - 2010
With jokes, puns, and a rigorous problem solving based approach. You can download all the code samples used in the book from here: http://www.robmiles.com/s/Yellow-Book...