Mastering Python for Bioinformatics
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 tools including linters, formatters, type checkers, and tests 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 p ...
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 tools including linters, formatters, type checkers, and tests 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 p ...
Hands-On Data Visualization
Tell your story and show it with data, using free and easy-to-learn tools on the web. This introductory book teaches you how to design interactive charts and customized maps for your website, beginning with simple drag-and-drop tools such as Google Sheets, Datawrapper, and Tableau Public. You'll also gradually learn how to edit open source code templates like Chart.js, Highcharts, and Leaflet on GitHub. Hands-On Data Visualization takes you step-by-step through tutorials, real-world examples, and online resources. This practical guide is ideal for students, nonprofit organizations, small business owners, local governments, journalists, academics, and anyone who wants to take data out of spreadsheets and turn it into lively interactive stories. No coding experience is required. - Build interactive charts and maps and embed them in your website; - Understand the principles for designing effective charts and maps; - Learn key data visualization concepts to help you choose the righ ...
Tell your story and show it with data, using free and easy-to-learn tools on the web. This introductory book teaches you how to design interactive charts and customized maps for your website, beginning with simple drag-and-drop tools such as Google Sheets, Datawrapper, and Tableau Public. You'll also gradually learn how to edit open source code templates like Chart.js, Highcharts, and Leaflet on GitHub. Hands-On Data Visualization takes you step-by-step through tutorials, real-world examples, and online resources. This practical guide is ideal for students, nonprofit organizations, small business owners, local governments, journalists, academics, and anyone who wants to take data out of spreadsheets and turn it into lively interactive stories. No coding experience is required. - Build interactive charts and maps and embed them in your website; - Understand the principles for designing effective charts and maps; - Learn key data visualization concepts to help you choose the righ ...
The Common Java Cookbook
This book focuses on tactical implementation details, answering such questions as: How do we parse XML? How do we serialize beans? Is there an easier way to work with Collections? How do we work with HTTP and keep track of cookies? In enterprise software development, the tactical is often sacrificed for the strategic. Consider a complex enterprise-scale system with a solid, well-conceived architecture. The strategic (or high-level) design appears reasonable from 40,000 feet, but as soon as you drill into the details, you notice that every component contains pages upon pages of unmaintainable and unnecessary code because the developers were not aware of some valuable time-saver like BeanUtils, Collections, or the Digester. Or, worse, the developer may have spent a week reimplementing most of the capabilities of Commons BeanUtils even though BeanUtils was already in the classpath. While a familiarity with Apache Commons may not directly affect the architecture of your application, knowin ...
This book focuses on tactical implementation details, answering such questions as: How do we parse XML? How do we serialize beans? Is there an easier way to work with Collections? How do we work with HTTP and keep track of cookies? In enterprise software development, the tactical is often sacrificed for the strategic. Consider a complex enterprise-scale system with a solid, well-conceived architecture. The strategic (or high-level) design appears reasonable from 40,000 feet, but as soon as you drill into the details, you notice that every component contains pages upon pages of unmaintainable and unnecessary code because the developers were not aware of some valuable time-saver like BeanUtils, Collections, or the Digester. Or, worse, the developer may have spent a week reimplementing most of the capabilities of Commons BeanUtils even though BeanUtils was already in the classpath. While a familiarity with Apache Commons may not directly affect the architecture of your application, knowin ...
MongoDB Performance Tuning
Use this fast and complete guide to optimize the performance of MongoDB databases and the applications that depend on them. You will be able to turbo-charge the performance of your MongoDB applications to provide a better experience for your users, reduce your running costs, and avoid application growing pains. MongoDB is the world's most popular document database and the foundation for thousands of mission-critical applications. This book helps you get the best possible performance from MongoDB. MongoDB Performance Tuning takes a methodical and comprehensive approach to performance tuning that begins with application and schema design and goes on to cover optimization of code at all levels of an application. The book also explains how to configure MongoDB hardware and cluster configuration for optimal performance. The systematic approach in the book helps you treat the true causes of performance issues and get the best return on your tuning investment. Even when you're under pressu ...
Use this fast and complete guide to optimize the performance of MongoDB databases and the applications that depend on them. You will be able to turbo-charge the performance of your MongoDB applications to provide a better experience for your users, reduce your running costs, and avoid application growing pains. MongoDB is the world's most popular document database and the foundation for thousands of mission-critical applications. This book helps you get the best possible performance from MongoDB. MongoDB Performance Tuning takes a methodical and comprehensive approach to performance tuning that begins with application and schema design and goes on to cover optimization of code at all levels of an application. The book also explains how to configure MongoDB hardware and cluster configuration for optimal performance. The systematic approach in the book helps you treat the true causes of performance issues and get the best return on your tuning investment. Even when you're under pressu ...
Practical Foundations for Programming Languages
Types are the central organizing principle of the theory of programming languages. Language features are manifestations of type structure. The syntax of a language is governed by the constructs that define its types, and its semantics is determined by the interactions among those constructs. The soundness of a language design - the absence of ill-defined programs-follows naturally. The purpose of this book is to explain this remark. A variety of programming language features are analyzed in the unifying framework of type theory. A language feature is defined by its statics, the rules governing the use of the feature in a program, and its dynamics, the rules defining how programs using this feature are to be executed. The concept of safety emerges as the coherence of the statics and the dynamics of a language. In this way we establish a foundation for the study of programming languages. But why these particular methods? The main justification is provided by the book itself. The metho ...
Types are the central organizing principle of the theory of programming languages. Language features are manifestations of type structure. The syntax of a language is governed by the constructs that define its types, and its semantics is determined by the interactions among those constructs. The soundness of a language design - the absence of ill-defined programs-follows naturally. The purpose of this book is to explain this remark. A variety of programming language features are analyzed in the unifying framework of type theory. A language feature is defined by its statics, the rules governing the use of the feature in a program, and its dynamics, the rules defining how programs using this feature are to be executed. The concept of safety emerges as the coherence of the statics and the dynamics of a language. In this way we establish a foundation for the study of programming languages. But why these particular methods? The main justification is provided by the book itself. The metho ...
Chaos Engineering
Auto engineers test the safety of a car by intentionally crashing it and carefully observing the results. Chaos engineering applies the same principles to software systems. In Chaos Engineering: Site reliability through controlled disruption, you'll learn to run your applications and infrastructure through a series of tests that simulate real-life failures. You'll maximize the benefits of chaos engineering by learning to think like a chaos engineer, and how to design the proper experiments to ensure the reliability of your software. With examples that cover a whole spectrum of software, you'll be ready to run an intensive testing regime on anything from a simple WordPress site to a massive distributed system running on Kubernetes. Can your network survive a devastating failure? Could an accident bring your day-to-day operations to a halt? Chaos engineering simulates infrastructure outages, component crashes, and other calamities to show how systems and staff respond. Testing systems ...
Auto engineers test the safety of a car by intentionally crashing it and carefully observing the results. Chaos engineering applies the same principles to software systems. In Chaos Engineering: Site reliability through controlled disruption, you'll learn to run your applications and infrastructure through a series of tests that simulate real-life failures. You'll maximize the benefits of chaos engineering by learning to think like a chaos engineer, and how to design the proper experiments to ensure the reliability of your software. With examples that cover a whole spectrum of software, you'll be ready to run an intensive testing regime on anything from a simple WordPress site to a massive distributed system running on Kubernetes. Can your network survive a devastating failure? Could an accident bring your day-to-day operations to a halt? Chaos engineering simulates infrastructure outages, component crashes, and other calamities to show how systems and staff respond. Testing systems ...
Knative in Action
Take the pain out of managing serverless applications. Knative, a collection of Kubernetes extensions curated by Google, simplifies building and running serverless systems. Knative in Action guides you through the Knative toolkit, showing you how to launch, modify, and monitor event-based apps built using cloud-hosted functions like AWS Lambda. You'll learn how to use Knative Serving to develop software that is easily deployed and autoscaled, how to use Knative Eventing to wire together disparate systems into a consistent whole, and how to integrate Knative into your shipping pipeline. With Knative, managing a serverless application's full lifecycle is a snap. Knative builds on Kubernetes orchestration features, making it easy to deploy and run serverless apps. It handles low-level chores - such as starting and stopping instances - so you can concentrate on features and behavior. Knative in Action teaches you to build complex and efficient serverless applications. You'll dive int ...
Take the pain out of managing serverless applications. Knative, a collection of Kubernetes extensions curated by Google, simplifies building and running serverless systems. Knative in Action guides you through the Knative toolkit, showing you how to launch, modify, and monitor event-based apps built using cloud-hosted functions like AWS Lambda. You'll learn how to use Knative Serving to develop software that is easily deployed and autoscaled, how to use Knative Eventing to wire together disparate systems into a consistent whole, and how to integrate Knative into your shipping pipeline. With Knative, managing a serverless application's full lifecycle is a snap. Knative builds on Kubernetes orchestration features, making it easy to deploy and run serverless apps. It handles low-level chores - such as starting and stopping instances - so you can concentrate on features and behavior. Knative in Action teaches you to build complex and efficient serverless applications. You'll dive int ...
GraphQL in Action
Reduce bandwidth demands on your APIs by getting only the results you need - all in a single request! The GraphQL query language simplifies interactions with web servers, enabling smarter API queries that can hugely improve the efficiency of data requests. In GraphQL in Action, you'll learn how to bring those benefits to your own APIs, giving your clients the power to ask for exactly what they need from your server, no more, no less. Practical and example-driven, this book teaches everything you need to get started with GraphQL - from design principles and syntax right through to performance optimization. GraphQL APIs are fast, efficient, and easy to maintain. They reduce app latency and server cost while boosting developer productivity. This powerful query layer offers precise control over API requests and returns, making apps faster and less prone to error. GraphQL in Action gives you the tools to get comfortable with the GraphQL language, build and optimize a data API service, ...
Reduce bandwidth demands on your APIs by getting only the results you need - all in a single request! The GraphQL query language simplifies interactions with web servers, enabling smarter API queries that can hugely improve the efficiency of data requests. In GraphQL in Action, you'll learn how to bring those benefits to your own APIs, giving your clients the power to ask for exactly what they need from your server, no more, no less. Practical and example-driven, this book teaches everything you need to get started with GraphQL - from design principles and syntax right through to performance optimization. GraphQL APIs are fast, efficient, and easy to maintain. They reduce app latency and server cost while boosting developer productivity. This powerful query layer offers precise control over API requests and returns, making apps faster and less prone to error. GraphQL in Action gives you the tools to get comfortable with the GraphQL language, build and optimize a data API service, ...
The Joy of JavaScript
Whether building interactive browser-based applications or creating server-side applications in Node, JavaScript is the most widely used language for web programming. With new features, language improvements, paradigms, and potential use cases appearing regularly, there's never been a more exciting time to be a JavaScript developer. In The Joy of JavaScript, author and JavaScript expert Luis Atencio teaches you key design concepts that lead to clean, lean, modular, and easy-to-maintain code. JavaScript is at the heart of web applications on the browser side and, via the popular Node.js runtime, it often powers the server side too. Simply put, the web runs on JavaScript. The Joy of JavaScript introduces techniques that turn JavaScript programmers into JavaScript pros. You'll work with cutting edge APIs, language features, and coding styles to tackle tricky problems in an elegant manner. Along the way, you'll practice good object design, drive business logic with functional thinkin ...
Whether building interactive browser-based applications or creating server-side applications in Node, JavaScript is the most widely used language for web programming. With new features, language improvements, paradigms, and potential use cases appearing regularly, there's never been a more exciting time to be a JavaScript developer. In The Joy of JavaScript, author and JavaScript expert Luis Atencio teaches you key design concepts that lead to clean, lean, modular, and easy-to-maintain code. JavaScript is at the heart of web applications on the browser side and, via the popular Node.js runtime, it often powers the server side too. Simply put, the web runs on JavaScript. The Joy of JavaScript introduces techniques that turn JavaScript programmers into JavaScript pros. You'll work with cutting edge APIs, language features, and coding styles to tackle tricky problems in an elegant manner. Along the way, you'll practice good object design, drive business logic with functional thinkin ...
Java-Based Real-Time Programming
Development of embedded software has for some years mainly been carried out by hardware-aware programming using the C-language, and in some cases even in assembly languages. This works well in simple cases when the application demands and the hardware are known at design time, and the size of the (statically defined) software is small. When applications increase in size and must be rapidly developed (time to market), and perhaps need to be on-line upgradeable, more programming support is needed. In particular, for critical applications (safety critical as in an airplane, mission critical as in space/military/nuclear tasks, economically critical if the survival of the company depends on the reliability of the computer system, etc.) special measures must be taken to limit the possible (faulty) influences of one software function on another part of the system. Therefore, we have to abandon programming in C or C++ for large/complex systems. Instead, we have to base the core development on ...
Development of embedded software has for some years mainly been carried out by hardware-aware programming using the C-language, and in some cases even in assembly languages. This works well in simple cases when the application demands and the hardware are known at design time, and the size of the (statically defined) software is small. When applications increase in size and must be rapidly developed (time to market), and perhaps need to be on-line upgradeable, more programming support is needed. In particular, for critical applications (safety critical as in an airplane, mission critical as in space/military/nuclear tasks, economically critical if the survival of the company depends on the reliability of the computer system, etc.) special measures must be taken to limit the possible (faulty) influences of one software function on another part of the system. Therefore, we have to abandon programming in C or C++ for large/complex systems. Instead, we have to base the core development on ...