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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
Cell Type-Specific Roles of NF-κB Linking Inflammation and Thrombosis.
Marion Mussbacher,Manuel Salzmann,Christine Brostjan,Bastian Hoesel,Christian Schoergenhofer,Hannes Datler,Philipp J. Hohensinner,José Basílio,Peter Petzelbauer,Alice Assinger,Johannes A. Schmid +10 more
TL;DR: The role of NF-κB signaling in cell types within the vasculature and the circulation that are involved in thrombo-inflammatory processes is focused on, as it is critically involved in pathophysiological processes as it induces both inflammatory and thrombotic responses.
Journal ArticleDOI
Estimating infectiousness throughout SARS-CoV-2 infection course.
Terry Jones,Terry Jones,Terry Jones,Guido Biele,Guido Biele,Barbara Mühlemann,Barbara Mühlemann,Talitha Veith,Talitha Veith,Julia Schneider,Julia Schneider,Jörn Beheim-Schwarzbach,Tobias Bleicker,Julia Tesch,Marie Luisa Schmidt,Leif E. Sander,Florian Kurth,Florian Kurth,Peter Menzel,Rolf Schwarzer,Marta Zuchowski,Jörg Hofmann,Andi Krumbholz,Angela Stein,Anke Edelmann,Victor M. Corman,Victor M. Corman,Christian Drosten,Christian Drosten +28 more
TL;DR: In this article, the authors examined 25,381 German SARS-CoV-2 cases, including 6110 from test centers attended by pre-symptomatic, asymptomatic and mildly symptom-free (PAMS) subjects, 9519 who were hospitalised, and 1533 B.1.7 lineage infections.
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Estabelecimento e transmissão crítica do vírus Zika no Brasil e nas Américas/Establishment and cryptic transmission of Zika virus in Brazil and the Americas
Nuno R. Faria,Josh Quick,Ingra Morales Claro,Julien Thézé,J G de Jesus,Marta Giovanetti,Moritz U. G. Kraemer,Sarah C. Hill,Allison Black,A. C. da Costa,L. C Franco,Sandro Patroca da Silva,C.-H Wu,Jayna Raghwani,Simon Cauchemez,L. du Plessis,M. P Verotti,W. K. de Oliveira,Eduardo Hage Carmo,Giovanini E. Coelho,A. C. F. S Santelli,L. C Vinhal,Cláudio Maierovitch Pessanha Henriques,Jared T. Simpson,M Loose,Kristian G. Andersen,Nathan D. Grubaugh,Sneha Somasekar,Charles Y. Chiu,José Esteban Muñoz-Medina,César González-Bonilla,Carlos F. Arias,Lia Laura Lewis-Ximenez,Sally A. Baylis,Alexandre Otavio Chieppe,Shirlei Ferreira Aguiar,Carlos Fernandes,Poliana da Silva Lemos,B. L. S Nascimento,Hamilton Antônio de Oliveira Monteiro,Isadora Cristina de Siqueira,M. G. de Queiroz,T. R. de Souza,João Felipe Bezerra,M. R Lemos,Gavin Pereira,D Loudal,L. C Moura,Rafael Dhalia,Rafael F. O. França,T Magalhães,E. T Marques Júnior,Thomas Jaenisch,Gabriel Luz Wallau,M. C. de Lima,Nascimento,E. M. de Cerqueira,M. M. de Lima,D. L Mascarenhas,J. P Moura Neto,Anna S. Levin,Tania Regina Tozetto-Mendoza,Silvia Nunes Szente Fonseca,Maria Cassia Mendes-Correa,Flavio Augusto de Pádua Milagres,Aluísio Augusto Cotrim Segurado,Edward C. Holmes,Andrew Rambaut,Trevor Bedford,Márcio Roberto Teixeira Nunes,Ester Cerdeira Sabino,Luiz Carlos Junior Alcantara,Nicholas J. Loman,Oliver G. Pybus +73 more
TL;DR: Analyses of viral genomes with ecological and epidemiological data yield an estimate that ZikV was present in northeast Brazil by February 2014 and is likely to have disseminated from there, nationally and internationally, before the first detection of ZIKV in the Americas.
Journal ArticleDOI
Extensive Heterogeneity and Intrinsic Variation in Spatial Genome Organization
Elizabeth H. Finn,Gianluca Pegoraro,Hugo B. Brandão,Anne-Laure Valton,Marlies E. Oomen,Job Dekker,Leonid A. Mirny,Tom Misteli +7 more
TL;DR: High-throughput optical mapping of several hundred intra-chromosomal interactions in individual human fibroblasts demonstrates low association frequencies, which are determined by genomic distance, higher-order chromatin architecture, and chromatin environment.
Posted ContentDOI
scater: pre-processing, quality control, normalisation and visualisation of single-cell RNA-seq data in R
TL;DR: The R/Bioconductor package scater is developed to facilitate rigorous pre-processing, quality control, normalisation and visualisation of scRNA-seq data and provides a convenient, flexible workflow to process raw sequencing reads into a high-quality expression dataset ready for downstream analysis.