Pietro Incardona

Voglerstrasse 21, Dresden

Summary

I am looking for an international working environment within the best research institutes where the development of advanced and ground breaking scientific tools is considered to have an important role to do science.

Overview

1823

years of professional experience

Work History

Bioinformatician

Uniklinikum Bonn

Bonn

04.202 - Current

Full stack developer: Customization of platform for variant analysis for rare diseases in clinical and research cases. Development of next generation sequencing pipelines.

Software Developer/Staff Scientist

Max Planck Institute - CBG

Dresden

09.2012 - 04.2022

High Performance Computing: development and design of distributed data structures to design parallelized algorithms on GPUs/CPUs clusters. Creator and architect of OpenFPM (Open Framework for particle and meshes) http://openfpm.mpi-cbg.de/.

Image processing: Maintainer and release engineer of the Mosaic ToolSuite for Fiji in Java. https://sbalzarini-lab.org/?
q=downloads/imageJ

Education

Ph.D. - Computer Science

Technische Universität Dresden

Dresden

02.2022

Master of Science - Theoretical Physics

DIFI University of Genoa

Genoa

09.2011

Skills

NGS sequencing technologies and sequencing tools
Django Web development
Data Management
High Performance Computing: CUDA,HIP, Message Passing Interface (MPI),
C/C Template meta programming/Object-Oriented Programming
High Level Languages: Python, Java, Typescript, Javascript
Linear Algebra: and direct solvers

Reverse Engineering: Assembler x86
Software Testing and Validation
Performance evaluation and optimization on CPU and GPU
Data structures and algorithms: Distribution and parallelization for simulation applications
DevOps: Automation and orchestration
Socket programming: TCP/UDP (Client/Server)

Accomplishments

P. Incardona, A. Leo, Y. Zaluzhnyi, R. Ramaswamy, and I. F. Sbalzarini. OpenFPM: A scalable open framework for particle and particle-mesh codes on parallel computers. Comput. Phys. Commun., 241:155– 177, 2019.

P. Incardona, T. Bianucci, and I. F. Sbalzarini. Distributed sparse block grids on GPUs. In Proc. International Conference on High Performance Computing (ISC), volume 12728 of Lecture Notes in Computer Science, pages 272–290, Cham, Switzerland, 2021. Springer.

P. Incardona, S. Yaskivet, A. Gupta, and I. F. Sbalzarini. A C++ library for memory layout and performance portability of scientific applications. HeteroPar 2022

A. Singh, P. Incardona, and I. F. Sbalzarini. A C++ expression system for partial differential equations enables generic simulations of biological hydrodynamics. Eur. Phys. J. E, 44:117, 2021

O. Ostrenko, P. Incardona, R. Ramaswamy, L. Brusch, and I. F. Sbalzarini. pSSAlib: The partial-propensity stochastic chemical network simulator. PLoS Comput. Biol.

A. Gupta, P. Incardona, A. D. Aydin, S. Gumhold, U. Günther, and I. F. Sbalzarini. An Architecture for Interactive In Situ Visualization and its Transparent Implementation in OpenFPM. In Proc. Workshop on In Situ Infrastructures for Enabling Extreme-scale Analysis and Visualization (ISAV), SC20: The International Conference on High Performance Computing, Networking, Storage, and Analysis, pages 20-26, online, ACM, 2020.

A. Rizk, G. Paul, P. Incardona, M. Bugarski, M. Mansouri, A. Niemann, U. Ziegler, P. Berger, and I. F. Sbalzarini. Segmentation and quantification of subcellular structures in fluorescence microscopy images using Squassh. Nature Protocols, 9(3):586–596, 2014.

Timeline