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ggplot2: Elegant Graphics for Data Analysis
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TLDR
This book describes ggplot2, a new data visualization package for R that uses the insights from Leland Wilkisons Grammar of Graphics to create a powerful and flexible system for creating data graphics.Abstract:
This book describes ggplot2, a new data visualization package for R that uses the insights from Leland Wilkisons Grammar of Graphics to create a powerful and flexible system for creating data graphics. With ggplot2, its easy to: produce handsome, publication-quality plots, with automatic legends created from the plot specification superpose multiple layers (points, lines, maps, tiles, box plots to name a few) from different data sources, with automatically adjusted common scales add customisable smoothers that use the powerful modelling capabilities of R, such as loess, linear models, generalised additive models and robust regression save any ggplot2 plot (or part thereof) for later modification or reuse create custom themes that capture in-house or journal style requirements, and that can easily be applied to multiple plots approach your graph from a visual perspective, thinking about how each component of the data is represented on the final plot. This book will be useful to everyone who has struggled with displaying their data in an informative and attractive way. You will need some basic knowledge of R (i.e. you should be able to get your data into R), but ggplot2 is a mini-language specifically tailored for producing graphics, and youll learn everything you need in the book. After reading this book youll be able to produce graphics customized precisely for your problems,and youll find it easy to get graphics out of your head and on to the screen or page.read more
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Journal ArticleDOI
Composition, taxonomy and functional diversity of the oropharynx microbiome in individuals with schizophrenia and controls
Eduardo Castro-Nallar,Matthew L. Bendall,Marcos Pérez-Losada,Marcos Pérez-Losada,Marcos Pérez-Losada,Sarven Sabuncyan,Emily G. Severance,Faith Dickerson,Jennifer Schroeder,Robert H. Yolken,Keith A. Crandall +10 more
TL;DR: It is suggested that the oropharyngeal microbiome in individuals with schizophrenia is significantly different compared to controls, and that particular microbial species and metabolic pathways differentiate both groups.
Journal ArticleDOI
Lyra: An Interactive Visualization Design Environment
Arvind Satyanarayan,Jeffrey Heer +1 more
TL;DR: Lyra enables users to rapidly develop customized visualizations, covering a design space comparable to existing programming‐based tools, and is evaluated for its expressivity and accessibility.
Journal ArticleDOI
Muscle Satellite Cell Cross-Talk with a Vascular Niche maintains quiescence via VEGF and Notch Signaling
Mayank Verma,Yoko Asakura,Bhavani Sai Rohit Murakonda,Thomas Pengo,Claire Latroche,Bénédicte Chazaud,Linda K. McLoon,Atsushi Asakura +7 more
TL;DR: It is hypothesized that MuSCs recruit capillary ECs via VEGFA, and in return, ECs maintain MuSC quiescence though Dll4, and it is shown that this proximity to the blood vessels was associated with MuSC self-renewal.
Journal ArticleDOI
MEMBPLUGIN: studying membrane complexity in VMD.
Ramon Guixà-González,Ismael Rodríguez-Espigares,Juan Manuel Ramírez-Anguita,Pau Carrió-Gaspar,Hector Martinez-Seara,Toni Giorgino,Jana Selent +6 more
TL;DR: MEMBPLUGIN is a plugin for the Visual Molecular Dynamics package that provides algorithms to measure a host of essential biophysical properties in simulated membranes and is accessible both through a user-friendly graphical interface and as command-line procedures to be invoked in analysis scripts.
Journal ArticleDOI
The human gene damage index as a gene-level approach to prioritizing exome variants
Yuval Itan,Lei Shang,Bertrand Boisson,Etienne Patin,Etienne Patin,Alexandre Bolze,Marcela Moncada-Vélez,Marcela Moncada-Vélez,Eric Scott,Michael J. Ciancanelli,Fabien G. Lafaille,Janet Markle,Rubén Martínez-Barricarte,Sarah Jill De Jong,Xiao-Fei Kong,Patrick Nitschke,Aziz Belkadi,Aziz Belkadi,Jacinta Bustamante,Anne Puel,Anne Puel,Stéphanie Boisson-Dupuis,Stéphanie Boisson-Dupuis,Stéphanie Boisson-Dupuis,Peter D. Stenson,Joseph G. Gleeson,Joseph G. Gleeson,David Neil Cooper,Lluis Quintana-Murci,Lluis Quintana-Murci,Jean-Michel Claverie,Shen-Ying Zhang,Shen-Ying Zhang,Shen-Ying Zhang,Laurent Abel,Laurent Abel,Laurent Abel,Jean-Laurent Casanova +37 more
TL;DR: The gene damage index (GDI) is described, a genome-wide, gene-level metric of the mutational damage that has accumulated in the general population, and it is found that the GDI was correlated with selective evolutionary pressure, protein complexity, coding sequence length, and the number of paralogs.