Lalonde, E. | Search bioRxiv

bioRxiv2017

BPG: Seamless, Automated and Interactive Visualization of Scientific Data

We introduce BPG, an easy-to-use framework for generating publication-quality, highly-customizable plots in the R statistical environment. This open-source package includes novel methods of displaying high-dimensional datasets and facilitates generation of complex multi-panel figures, making it ideal for complex datasets. A web-based interactive tool allows online figure customization, from which R code can be downloaded for seamless integration with computational pipelines. BPG is available at http://labs.oicr.on.ca/boutros-lab/software/bpg

bioinformatics↗

bioRxiv2017

Mining human prostate cancer datasets: The "camcAPP" shiny app

Obtaining access to robust, well-annotated human genomic datasets is an important step in demonstrating relevance of experimental findings and, often, in generating the hypotheses that led to those experiments being conducted in the first place. We recently published data from two cohorts of men with prostate cancer who had undergone prostatectomy, men from Cambridge, UK and Stockholm, Sweden.1 We considered how we might best share our output with those who wish to interrogate the data with their own ideas, gene lists and clinical questions. We recognised that finding, down-loading, processing and assimilating any such dataset into a usable format is daunting and may put off even the more persistent researcher. We also felt that interrogation tools generated to date (e.g. cBioPortal) lack functionality as they either cover too many organ types, or fall short in terms of clinical annotation. We therefore determined to produce an accessible web-based platform ...

cancer biology↗