RT Journal Article
SR Electronic
T1 Gpufit: An open-source toolkit for GPU-accelerated curve fitting
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 174110
DO 10.1101/174110
A1 Adrian Przybylski
A1 Björn Thiel
A1 Jan Keller-Findeisen
A1 Bernd Stock
A1 Mark Bates
YR 2017
UL http://biorxiv.org/content/early/2017/09/12/174110.abstract
AB We present a general purpose, open-source software library for estimation of nonlinear parameters by the Levenberg-Marquardt algorithm. The software, Gpufit, runs on a Graphics Processing Unit (GPU) and executes computations in parallel, resulting in a significant gain in performance. We measured a speed increase of up to 42 times when comparing Gpufit with an identical CPU-based algorithm, with no loss of precision or accuracy. Gpufit is designed such that it is easily incorporated into existing applications or adapted for new ones. Multiple software interfaces, including to C, Python, and Matlab, ensure that Gpufit is accessible from most programming environments. The full source code is published as an open source software repository, making its function transparent to the user and facilitating future improvements and extensions. As a demonstration, we used Gpufit to accelerate an existing scientific image analysis package, yielding significantly improved processing times for super-resolution fluorescence microscopy datasets.