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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
High-Density SNP Genotyping of Tomato (Solanum lycopersicum L.) Reveals Patterns of Genetic Variation Due to Breeding
Sung-Chur Sim,Allen Van Deynze,Kevin Stoffel,David S. Douches,Daniel Zarka,Martin W. Ganal,Roger T. Chetelat,Samuel F. Hutton,John W. Scott,Randolph G. Gardner,Dilip R. Panthee,Martha A. Mutschler,James R. Myers,David M. Francis +13 more
TL;DR: The observed SNP variation and LD decay suggest that different patterns of genetic variation in cultivated tomato are due to introgression from wild species and selection for market specialization.
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ggalluvial: Layered Grammar for Alluvial Plots
TL;DR: The ggalluvial package adopts a distinctive geological nomenclature to distinguish “alluvial plots” and their graphical elements from Sankey diagrams and parallel sets plots, which I hope prove useful as these visualization tools converge toward common standards.
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Global incidence of malignant brain and other central nervous system tumors by histology, 2003–2007
TL;DR: A comprehensive understanding of the epidemiology of malignant brain tumors globally is critical to researchers, public health officials, disease interest groups, and clinicians and contributes to collaborative efforts in future research.
Journal ArticleDOI
Associations between infant fungal and bacterial dysbiosis and childhood atopic wheeze in a nonindustrialized setting.
Marie-Claire Arrieta,Marie-Claire Arrieta,Andrea Arévalo,Leah T. Stiemsma,Leah T. Stiemsma,Pedro A. Dimitriu,Martha E. Chico,Sofia Loor,Maritza Vaca,Rozlyn C.T. Boutin,Evan Morien,Mingliang Jin,Stuart E. Turvey,Jens Walter,Laura Wegener Parfrey,Philip J. Cooper,Philip J. Cooper,B. Brett Finlay +17 more
TL;DR: In this paper, a case-control study nested within a birth cohort from rural Ecuador in which they identified 27 children with atopic wheeze and 70 healthy control subjects at 5 years of age.
Journal ArticleDOI
Combining transcriptome assemblies from multiple de novo assemblers in the allo-tetraploid plant Nicotiana benthamiana.
TL;DR: To achieve a high quality transcriptome, it is advantageous to implement and combine the output from as many different de novo assemblers as possible, taking the ‘best’ output from each assembler while minimising sequence redundancy.