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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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Disease severity-specific neutrophil signatures in blood transcriptomes stratify COVID-19 patients
Anna C. Aschenbrenner,Anna C. Aschenbrenner,Maria Mouktaroudi,Benjamin Krämer,Nikolaos Antonakos,Marie Oestreich,Konstantina Gkizeli,Melanie Nuesch-Germano,Maria Saridaki,Lorenzo Bonaguro,Nico Reusch,Kevin Baßler,Sarandia Doulou,Rainer Knoll,Tal Pecht,Theodore S. Kapellos,Nikoletta Rovina,Charlotte Kröger,Miriam Herbert,Lisa Holsten,Arik Horne,Ioanna D. Gemünd,Shobhit Agrawal,Kilian Dahm,Martina van Uelft,Anna Drews,Lena Lenkeit,Niklas Bruse,Jelle Gerretsen,Jannik Gierlich,Matthias Becker,Kristian Händler,Michael Kraut,Heidi Theis,Simachew Mengiste,Elena De Domenico,Jonas Schulte-Schrepping,Lea Seep,Jan Raabe,Christoph Hoffmeister,Michael ToVinh,Verena Keitel,Gereon Rieke,Valentina Talevi,N. Ahmad Aziz,N. Ahmad Aziz,Peter Pickkers,Frank L. van de Veerdonk,Mihai G. Netea,Mihai G. Netea,Joachim L. Schultze,Joachim L. Schultze,Matthijs Kox,Monique M.B. Breteler,Monique M.B. Breteler,Jacob Nattermann,Antonia Koutsoukou,Evangelos J. Giamarellos-Bourboulis,Thomas Ulas,Thomas Ulas,German Covid Omics Initiative +60 more
TL;DR: Comparison of COVID-19 blood transcriptomes with those of a collection of over 2,600 samples derived from 11 different viral infections, inflammatory diseases and independent control samples revealed highly specific transcriptome signatures for CO VID-19, which predicted patient subgroup-specific drug candidates targeting the dysregulated systemic immune response of the host.
Journal ArticleDOI
Divergent extremes but convergent recovery of bacterial and archaeal soil communities to an ongoing subterranean coal mine fire
TL;DR: It is hypothesize that priority effects from responsive seed bank transitions may be key in explaining the multiple equilibria observed among communities at extreme temperatures, and suggest that soils generally have an intrinsic capacity for robustness to varied disturbances, even to press disturbances considered to be ‘extreme’, compounded, or incongruent with natural conditions.
Journal ArticleDOI
Moisture insensitive prediction of soil properties from VNIR reflectance spectra based on external parameter orthogonalization
TL;DR: In this paper, external parameter orthogonalization (EPO) has been proposed as a useful method that links dry ground VNIR models to field moist scans to predict soil properties.
Journal ArticleDOI
Ecological and Genomic Attributes of Novel Bacterial Taxa That Thrive in Subsurface Soil Horizons.
Tess E. Brewer,Emma L. Aronson,Keshav Arogyaswamy,Sharon A. Billings,Jon K Botthoff,A. Campbell,Nicholas C. Dove,D. Fairbanks,Rachel E. Gallery,Stephen C. Hart,Jason P. Kaye,Gary M. King,Geoffrey D. Logan,Kathleen A. Lohse,Mia R. Maltz,Emilio Mayorga,Caitlin O'Neill,Sarah M. Owens,Aaron I. Packman,Jennifer Pett-Ridge,Alain F. Plante,Daniel Richter,Whendee L. Silver,Wendy H. Yang,Noah Fierer +24 more
TL;DR: It was found that bacterial and archaeal diversity generally decreased with depth, as did the degree of similarity of microbial communities to those found in surface horizons, and the candidate phylum Dormibacteraeota (formerly AD3) was often dominant in subsurface soils.
Journal ArticleDOI
The regulatory landscape of a core maize domestication module controlling bud dormancy and growth repression.
Zhaobin Dong,Yuguo Xiao,Rajanikanth Govindarajulu,Regina Feil,Muriel L. Siddoway,Torrey Nielsen,John E. Lunn,Jennifer S. Hawkins,Clinton J. Whipple,George Chuck +9 more
TL;DR: A metabolic and genomic analysis of domesticated axillary buds suggest that TB1 achieved this by regulating phytohormone signaling, sugar metabolism and other domestication genes.