Postdoc: Interactive and Exploratory Data Visualization Tools for High-Throughput –Omics Datasets
http://bit.ly/phinch 2.5 year postdoctoral position at the University of California, Riverside focused on the development of data visualization tools for microbial ecology and -Omics datasets: Phinch (http://phinch.org) is an open-source framework for visualizing biological data, funded by a grant from the Alfred P. Sloan foundation. This project represents an interdisciplinary collaboration between Pitch Interactive (http://pitchinteractive.com/ - a data visualization studio in Oakland, CA) and the Bik Lab at UC Riverside (https://biklab.github.io). Phinch currently supports data import in the BIOM format, the standard file output from microbial ecology pipelines such as QIIME. Typical user applications for Phinch include environmental rRNA amplicons or shotgun metagenomic data, although this framework is being expanded to support any type of sample/observation data represented in a standard format (RNA-seq, gene variants, phenotype character matrices, etc.). The appointed candidate will work with the Pitch Interactive studio to implement novel and interactive visualization features, develop statistical tests as visual plugin tools (e.g. via R shiny apps), and implement new phylogenetic visualizations for microbial ecology datasets. The postdoctoral scholar will also contribute to software documentation and end user training workshops as needed. Prospective applicants should review project aims outlined in the funded grant proposal (https://doi.org/10.6084/m9.figshare.5471809.v1) as well as these other related resources: * Phinch GitHub Wiki https://github.com/PitchInteractiveInc/Phinch/wiki * Bik HM, Pitch Interactive (2014) Phinch: An interactive, exploratory data visualization framework for –Omic datasets, bioRxiv, doi: http://dx.doi.org/10.1101/009944 (preprint) Minimum Qualifications: Postdoctoral applicants should possess a Ph.D. in a biological or computational discipline, demonstrate a strong publication record and ability to conduct independent research. All applicants are expected to develop strong written and verbal communication skills, as well as assist in mentoring undergraduate and graduate students. Exceptional candidates with M.S degrees and an appropriate skill set may also be considered for this position. Desirable Qualifications: Proficiency in a standard programming language (Python and/or Javascript preferred), experience in biological data visualization (e.g. knowledge of R packages such as ggplot, phyloseq, etc. or other visualization specific programming languages such as D3.js), and knowledge of common –Omics data types and workflows (e.g. analysis of rRNA amplicon datasets in QIIME, experience with binning/assembly/functional analysis of shotgun metagenomes, large phylogenomic analyses, etc.). Applicants with expertise in phylogenomics, comparative phylogenetics, and/or ecological statistics in R or Python are especially encouraged to apply. Application and Appointment: All appointments are initially for one year, and renewable based on performance. Salaries are commensurate with experience and based on minimums set by the University of California postdoctoral union. To apply, submit a curriculum vitae, a 1-page statement of research interests, and contact details for 2-3 academic references to holly....@ucr.edu. Review of applications will begin immediately, and will continue until the position is filled. Please contact Holly Bik (holly....@ucr.edu) with any questions. ---- Holly Bik Assistant Professor Department of Nematology University of California, Riverside 3401 Watkins Drive Riverside, CA 92521 Email: holly....@ucr.edu Web: http://biklab.github.io Twitter: https://twitter.com/hollybik
