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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
Spatial assessment of intertidal seagrass meadows using optical imaging systems and a lightweight drone
TL;DR: In this paper, the authors used a lightweight (sub 7 kg) drone and consumer grade cameras to produce very high spatial resolution (∼4mm pixel−1) mosaics of two intertidal sites in Wales, UK.
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Nutrient-Dependent Impact of Microbes on Drosophila suzukii Development
TL;DR: The microbiota of field-captured and laboratory-reared D. suzukii flies was investigated and it was found that proteins are limiting with respect to fly development on fruit-based diets and that GF flies show signs of protein starvation, showing that the impact of microbes on fly fitness depends strongly on nutritional conditions.
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Single-Cell Analyses of Colon and Blood Reveal Distinct Immune Cell Signatures of Ulcerative Colitis and Crohn's Disease.
Vanessa Mitsialis,Vanessa Mitsialis,Sarah Wall,Peng Liu,Jose Ordovas-Montanes,Jose Ordovas-Montanes,Jose Ordovas-Montanes,Tamar Parmet,Marko Vukovic,Dennis J. Spencer,Michael Field,Collin C. McCourt,Jessica Toothaker,Athos Bousvaros,Sonia Arora Ballal,Silvana Bonilla,Rima Fawaz,Laurie N. Fishman,Alejandro Flores,Victor L. Fox,Amit S. Grover,Leslie M. Higuchi,Susanna Huh,Stacy A. Kahn,Christine K. Lee,Munir Mobassaleh,Jodie Ouahed,Randi G. Pleskow,Brian P. Regan,Paul A. Rufo,Sabina Sabharwal,Jared Silverstein,Menno Verhave,Anne A. Wolf,Lori A. Zimmerman,Naamah L. Zitomersky,Jessica R. Allegretti,Punyanganie S. de Silva,Sonia Friedman,Matthew J. Hamilton,Joshua R. Korzenik,Frederick L. Makrauer,Beth-Ann Norton,Rachel W. Winter,Alex K. Shalek,Leslie S. Kean,Bruce H. Horwitz,Jeff Goldsmith,George C. Tseng,Scott B. Snapper,Scott B. Snapper,Liza Konnikova +51 more
TL;DR: Single-cell technologies were used to identify immune cell populations specific to mucosa and blood samples from patients with active or inactive CD and UC and controls and to develop therapies that target specific cell populations in patients with different types of IBD.
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KNIME for reproducible cross-domain analysis of life science data
Alexander Fillbrunn,Christian Dietz,Julianus Pfeuffer,René Rahn,Gregory A. Landrum,Michael R. Berthold +5 more
TL;DR: This review paper presents selected extensions from the life sciences that simplify data exploration, analysis, and visualization and are interoperable due to KNIME's unified data model.
Journal ArticleDOI
Genome-wide analysis of cold adaptation in indigenous Siberian populations.
Alexia Cardona,Luca Pagani,Tiago Antao,Daniel Lawson,Christina A. Eichstaedt,Bryndis Yngvadottir,Ma Than Than Shwe,Joseph Wee,Irene Gallego Romero,Srilakshmi M. Raj,Mait Metspalu,Richard Villems,Eske Willerslev,Chris Tyler-Smith,Boris Malyarchuk,Miroslava Derenko,Toomas Kivisild +16 more
TL;DR: A dataset of 200 individuals from ten indigenous Siberian populations that were genotyped for 730,525 SNPs across the genome is introduced to identify genes and non-coding regions that have undergone unusually rapid allele frequency and long-range haplotype homozygosity change in the recent past.