Data Integration Manipulation And Visualization Of Phylogenetic Trees
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Data Integration Manipulation And Visualization Of Phylogenetic Trees
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Author : Guangchuang Yu
language : en
Publisher: CRC Press
Release Date : 2022-08-26
Data Integration Manipulation And Visualization Of Phylogenetic Trees written by Guangchuang Yu and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-08-26 with Medical categories.
Data Integration, Manipulation and Visualization of Phylogenetic Trees introduces and demonstrates data integration, manipulation and visualization of phylogenetic trees using a suite of R packages, tidytree, treeio, ggtree and ggtreeExtra. Using the most comprehensive packages for phylogenetic data integration and visualization, contains numerous examples that can be used for teaching and learning. Ideal for undergraduate readers and researchers with a working knowledge of R and ggplot2. Key Features: Manipulating phylogenetic tree with associated data using tidy verbs Integrating phylogenetic data from diverse sources Visualizing phylogenetic data using grammar of graphics
Analysis Of Phylogenetics And Evolution With R
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Author : Emmanuel Paradis
language : en
Publisher: Springer Science & Business Media
Release Date : 2006-11-25
Analysis Of Phylogenetics And Evolution With R written by Emmanuel Paradis and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006-11-25 with Science categories.
This book integrates a wide variety of data analysis methods into a single and flexible interface: the R language. The book starts with a presentation of different R packages and gives a short introduction to R for phylogeneticists unfamiliar with this language. The basic phylogenetic topics are covered. The chapter on tree drawing uses R's powerful graphical environment. A section deals with the analysis of diversification with phylogenies, one of the author's favorite research topics. The last chapter is devoted to the development of phylogenetic methods with R and interfaces with other languages (C and C++). Some exercises conclude these chapters.
Text Mining With R
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Author : Julia Silge
language : en
Publisher: "O'Reilly Media, Inc."
Release Date : 2017-06-12
Text Mining With R written by Julia Silge and has been published by "O'Reilly Media, Inc." this book supported file pdf, txt, epub, kindle and other format this book has been release on 2017-06-12 with Computers categories.
Chapter 7. Case Study : Comparing Twitter Archives; Getting the Data and Distribution of Tweets; Word Frequencies; Comparing Word Usage; Changes in Word Use; Favorites and Retweets; Summary; Chapter 8. Case Study : Mining NASA Metadata; How Data Is Organized at NASA; Wrangling and Tidying the Data; Some Initial Simple Exploration; Word Co-ocurrences and Correlations; Networks of Description and Title Words; Networks of Keywords; Calculating tf-idf for the Description Fields; What Is tf-idf for the Description Field Words?; Connecting Description Fields to Keywords; Topic Modeling.
Practical Protein Bioinformatics
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Author : Florencio Pazos
language : en
Publisher: Springer
Release Date : 2014-11-28
Practical Protein Bioinformatics written by Florencio Pazos and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2014-11-28 with Science categories.
This book describes more than 60 web-accessible computational tools for protein analysis and is totally practical, with detailed explanations on how to use these tools and interpret their results and minimal mentions to their theoretical basis (only when that is required for making a better use of them). It covers a wide range of tools for dealing with different aspects of proteins, from their sequences, to their three-dimensional structures, and the biological networks they are immersed in. The selection of tools is based on the experience of the authors that lead a protein bioinformatics facility in a large research centre, with the additional constraint that the tools should be accessible through standard web browsers without requiring the local installation of specific software, command-line tools, etc. The web tools covered include those aimed to retrieve protein information, look for similar proteins, generate pair-wise and multiple sequence alignments of protein sequences, work with protein domains and motifs, study the phylogeny of a family of proteins, retrieve, manipulate and visualize protein three-dimensional structures, predict protein structural features as well as whole three-dimensional structures, extract biological information from protein structures, summarize large protein sets, study protein interaction and metabolic networks, etc. The book is associated to a dynamic web site that will reflect changes in the web addresses of the tools, updates of these, etc. It also contains QR codes that can be scanned with any device to direct its browser to the tool web site. This monograph will be most valuable for researchers in experimental labs without specific knowledge on bioinformatics or computing.
Functional And Phylogenetic Ecology In R
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Author : Nathan G. Swenson
language : en
Publisher: Springer Science & Business Media
Release Date : 2014-03-26
Functional And Phylogenetic Ecology In R written by Nathan G. Swenson and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2014-03-26 with Computers categories.
Functional and Phylogenetic Ecology in R is designed to teach readers to use R for phylogenetic and functional trait analyses. Over the past decade, a dizzying array of tools and methods were generated to incorporate phylogenetic and functional information into traditional ecological analyses. Increasingly these tools are implemented in R, thus greatly expanding their impact. Researchers getting started in R can use this volume as a step-by-step entryway into phylogenetic and functional analyses for ecology in R. More advanced users will be able to use this volume as a quick reference to understand particular analyses. The volume begins with an introduction to the R environment and handling relevant data in R. Chapters then cover phylogenetic and functional metrics of biodiversity; null modeling and randomizations for phylogenetic and functional trait analyses; integrating phylogenetic and functional trait information; and interfacing the R environment with a popular C-based program. This book presents a unique approach through its focus on ecological analyses and not macroevolutionary analyses. The author provides his own code, so that the reader is guided through the computational steps to calculate the desired metrics. This guided approach simplifies the work of determining which package to use for any given analysis. Example datasets are shared to help readers practice, and readers can then quickly turn to their own datasets.
Mastering Spark With R
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Author : Javier Luraschi
language : en
Publisher: "O'Reilly Media, Inc."
Release Date : 2019-10-07
Mastering Spark With R written by Javier Luraschi and has been published by "O'Reilly Media, Inc." this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-10-07 with Computers categories.
If you’re like most R users, you have deep knowledge and love for statistics. But as your organization continues to collect huge amounts of data, adding tools such as Apache Spark makes a lot of sense. With this practical book, data scientists and professionals working with large-scale data applications will learn how to use Spark from R to tackle big data and big compute problems. Authors Javier Luraschi, Kevin Kuo, and Edgar Ruiz show you how to use R with Spark to solve different data analysis problems. This book covers relevant data science topics, cluster computing, and issues that should interest even the most advanced users. Analyze, explore, transform, and visualize data in Apache Spark with R Create statistical models to extract information and predict outcomes; automate the process in production-ready workflows Perform analysis and modeling across many machines using distributed computing techniques Use large-scale data from multiple sources and different formats with ease from within Spark Learn about alternative modeling frameworks for graph processing, geospatial analysis, and genomics at scale Dive into advanced topics including custom transformations, real-time data processing, and creating custom Spark extensions
Modern Statistics For Modern Biology
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Author : SUSAN. HUBER HOLMES (WOLFGANG.)
language : en
Publisher: Cambridge University Press
Release Date : 2018
Modern Statistics For Modern Biology written by SUSAN. HUBER HOLMES (WOLFGANG.) and has been published by Cambridge University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018 with categories.
Interactive Web Based Data Visualization With R Plotly And Shiny
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Author : Carson Sievert
language : en
Publisher: CRC Press
Release Date : 2020-01-30
Interactive Web Based Data Visualization With R Plotly And Shiny written by Carson Sievert and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-01-30 with Business & Economics categories.
The richly illustrated Interactive Web-Based Data Visualization with R, plotly, and shiny focuses on the process of programming interactive web graphics for multidimensional data analysis. It is written for the data analyst who wants to leverage the capabilities of interactive web graphics without having to learn web programming. Through many R code examples, you will learn how to tap the extensive functionality of these tools to enhance the presentation and exploration of data. By mastering these concepts and tools, you will impress your colleagues with your ability to quickly generate more informative, engaging, and reproducible interactive graphics using free and open source software that you can share over email, export to pdf, and more. Key Features: Convert static ggplot2 graphics to an interactive web-based form Link, animate, and arrange multiple plots in standalone HTML from R Embed, modify, and respond to plotly graphics in a shiny app Learn best practices for visualizing continuous, discrete, and multivariate data Learn numerous ways to visualize geo-spatial data This book makes heavy use of plotly for graphical rendering, but you will also learn about other R packages that support different phases of a data science workflow, such as tidyr, dplyr, and tidyverse. Along the way, you will gain insight into best practices for visualization of high-dimensional data, statistical graphics, and graphical perception. The printed book is complemented by an interactive website where readers can view movies demonstrating the examples and interact with graphics.
Visualizing Data
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Author : Ben Fry
language : en
Publisher: "O'Reilly Media, Inc."
Release Date : 2008
Visualizing Data written by Ben Fry and has been published by "O'Reilly Media, Inc." this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008 with Computers categories.
Provides information on the methods of visualizing data on the Web, along with example projects and code.
Visualization Of Time Oriented Data
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Author : Wolfgang Aigner
language : en
Publisher: Springer Nature
Release Date : 2023-12-21
Visualization Of Time Oriented Data written by Wolfgang Aigner and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-12-21 with Computers categories.
This is an open access book. Time is an exceptional dimension with high relevance in medicine, engineering, business, science, biography, history, planning, or project management. Understanding time-oriented data via visual representations enables us to learn from the past in order to predict, plan, and build the future. This second edition builds upon the great success of the first edition. It maintains a brief introduction to visualization and a review of historical time-oriented visual representations. At its core, the book develops a systematic view of the visualization of time-oriented data. Separate chapters discuss interaction techniques and computational methods for supporting the visual data analysis. Many examples and figures illustrate the introduced concepts and techniques. So, what is new for the second edition? First of all, the second edition is now published as an open-access book so that anyone interested in the visualization of time and time-oriented data can read it. Second, the entire content has been revised and expanded to represent state-of-the-art knowledge. The chapter on interaction support now includes advanced methods for interacting with visual representations of time-oriented data. The second edition also covers the topics of data quality as well as segmentation and labeling. The comprehensive survey of classic and contemporary visualization techniques now provides more than 150 self-contained descriptions accompanied by illustrations and corresponding references. A completely new chapter describes how the structured survey can be used for the guided selection of suitable visualization techniques. For the second edition, our TimeViz Browser, the digital pendant to the survey of visualization techniques, received a major upgrade. It includes the same set of techniques as the book, but comes with additional filter and search facilities allowing scientists and practitioners to find exactly the solutions they are interested in.