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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
Transposable elements are the primary source of novelty in primate gene regulation.
Marco Trizzino,YoSon Park,Marcia Holsbach-Beltrame,Katherine Aracena,Katelyn Mika,Minal Çalışkan,George H. Perry,Vincent J. Lynch,Christopher D. Brown +8 more
TL;DR: The critical role of TEs in primate gene regulation is demonstrated and potential mechanisms underlying evolutionary divergence among the primate species through the noncoding genome are illustrated.
Journal ArticleDOI
A Quantitative Proteome Map of the Human Body.
Lihua Jiang,Meng Wang,Shin Lin,Ruiqi Jian,Xiao Li,Joanne Chan,Guanlan Dong,Huaying Fang,Aaron E Robinson,Michael Snyder +9 more
TL;DR: This study quantified the relative protein levels from over 12,000 genes across 32 normal human tissues to demonstrate how understanding protein levels can provide insights into regulation, secretome, metabolism, and human diseases.
Journal ArticleDOI
A Quantitative Genetic Basis for Leaf Morphology in a Set of Precisely Defined Tomato Introgression Lines
Daniel H. Chitwood,Ravi Kumar,Lauren R. Headland,Aashish Ranjan,Michael F. Covington,Yasunori Ichihashi,Daniel Fulop,José M. Jiménez-Gómez,Jie Peng,Julin N. Maloof,Neelima Sinha +10 more
TL;DR: The genotype of an IL population derived from the wild desert tomato Solanum pennellii at ultrahigh density is provided, providing the exact gene content harbored by each line, and meta-analysis of previously measured traits shows an unexpected relationship between leaf morphology and fruit sugar levels.
Journal ArticleDOI
Salmonella enterica genomes from victims of a major sixteenth-century epidemic in Mexico
Åshild J. Vågene,Åshild J. Vågene,Alexander Herbig,Alexander Herbig,Michael G. Campana,Michael G. Campana,Michael G. Campana,Nelly M. Robles García,Christina Warinner,Susanna Sabin,Maria A. Spyrou,Maria A. Spyrou,Aida Andrades Valtueña,Daniel H. Huson,Noreen Tuross,Kirsten I. Bos,Kirsten I. Bos,Johannes Krause,Johannes Krause +18 more
TL;DR: Ancient DNA from victims of a sixteenth-century disease in Mexico suggests that Salmonella enterica Paratyphi C (enteric fever) was responsible for a devastating epidemic that closely followed European presence in the region.