Joaquin Correa works on the development and deployment of integrated tools for high-throughput bio-image processing & analysis (LDRD-DOE). He is a former member and active affiliate of Auer's Lab at LBNL’s Life Sciences Division where he has prototyped algorithms and applications for image segmentation and 3D structural analysis in projects related to Hearing Loss and Deafness, Breast Cancer, Microbial Communities and Biofuels (plants and lignocellulosic degradation).
Prior to his appointment at LBNL, Joaquin worked as a Chem.E at a leading international manufacturing company on, but not limited to R&D, algorithm development, energy management and optimization, environmental legal compliance, strategic planning, product and process design and process simulation. He also has participated in projects for different energy-related Colombian government agencies. Correa holds a B.Sc. degree in Chemical Process Engineering from the National University of Colombia.
His interests include coupled-phenomena modeling & simulation; high-performance computing; signal processing; image processing, machine learning, computer vision and effective technology transfer for science and industry.
Joaquin Correa, Scalable web-based computational bioimaging solutions at NERSC, CryoEM meeting - SLAC National Accelerator Laboratory | Stanford University, April 17, 2014,
- Download File: CorreaCryoEM.pdf (pdf: 30 MB)
Joaquin Correa, Integrated Tools for NGBI--Lessons Learned and Successful Cases, LBNL Integrated Bioimaging Initiative, September 4, 2013,
- Download File: NGBILDRDLSD.pdf (pdf: 24 MB)
NextGen Bioimaging (NGBI) requires a reliable and flexible solution for multi-modal, high-throughput and high-performance image processing and analysis. In order to solve this challenge, we have developed an OMERO-based modular and flexible platform that integrates a suite of general-purpose processing software, a set of custom-tailored algorithms, specific bio-imaging applications and NERSC's high performance computing resources and its science gateways.
This under-development platform provides a shared scalable one-stop-shop web-service for producers and consumers of models built on imaging data to refine pixel data into actionable knowledge resources.
Joaquin Correa, David Skinner, "BIG DATA BIOIMAGING: Advances in Analysis, Integration, and Dissemination", Keystone Symposia on Molecular and Cellular Biology, March 24, 2014,
A fundamental problem currently for the biological community is to adapt computational solutions known broadly in data-centric science toward the specific challenges of data scaling in bioimaging. In this work we target software solutions fit for these tasks which leverages success in large scale data-centric science outside of bioimaging.