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Publications Publication Records - Search Tato aplikace je zatím určena pro spuštění na stolním počítači. Na tomto mobilním zařízení je také funkční, ale zatím plně nevyužívá jeho možností.

Tato aplikace je zatím určena pro spuštění na stolním počítači. Na tomto mobilním zařízení je také funkční, ale zatím plně nevyužívá jeho možností.

Publication Records - Search

Selected publication/outcome records

Optimizing CUDA code by kernel fusion: application on BLAS (2015)
Efficient Code Region Characterization Through Automatic Performance Counters Reduction Using Machine Learning Techniques (2024)
OpenCL Kernel Fusion for GPU, Xeon Phi and CPU (2015)
Accurate Fitting SAXS Curves with NMR Structure Ensembles (2015)
Accelerated RMSD Calculation for Molecular Metadynamics (2016)
CaverDock 1.0 (2017)
Autotuning of OpenCL Kernels with Global Optimizations (2017)
Kernel Tuning Toolkit (2018)
cuFFTAdvisor (2018)
Performance analysis and autotuning setup of the cuFFT library (2018)
A GPU acceleration of 3-D Fourier reconstruction in cryo-EM (2019)
CaverDock: A Novel Method for the Fast Analysis of Ligand Transport (2020)
CaverDock: a molecular docking-based tool to analyse ligand transport through protein tunnels and channels (2019)
Caver Web 1.0: identification of tunnels and channels in proteins and analysis of ligand transport (2019)
Exploiting historical data: pruning autotuning spaces and estimating the number of tuning steps (2019)
Fast Screening of Inhibitor Binding/Unbinding using Novel Software Tool CaverDock (2019)
A benchmark set of highly-efficient CUDA and OpenCL kernels and its dynamic autotuning with Kernel Tuning Toolkit (2020)
Caver web: identification of tunnels and channels in proteins and analysis of ligand transport (2019)
Exploiting historical data: Pruning autotuning spaces and estimating the number of tuning steps (2020)
FlexAlign: An Accurate and Fast Algorithm for Movie Alignment in Cryo-Electron Microscopy (2020)
4D-GRAPHS (2021)
DeepAlign, a 3D Alignment Method based on Regionalized Deep Learning for Cryo-EM (2021)
Simulation of Ligand Transport in Receptors Using CaverDock (2021)
Kernel Tuning Toolkit 2.0 (2021)
Image Processing in Cryo-Electron Microscopy of Single Particles: The Power of Combining Methods (2021)
Screening of world approved drugs against highly dynamical spike glycoprotein of SARS-CoV-2 using CaverDock and machine learning (2021)
Advances in Xmipp for Cryo–Electron Microscopy: From Xmipp to Scipion (2021)
Approximating deformation fields for the analysis of continuous heterogeneity of biological macromolecules by 3D Zernike polynomials (2021)
Using hardware performance counters to speed up autotuning convergence on GPUs (2022)
Searching CUDA code autotuning spaces with hardware performance counters: data from benchmarks running on various GPU architectures (2021)
On bias, variance, overfitting, gold standard and consensus in single-particle analysis by cryo-electron microscopy (2022)
Improving ligand transport trajectory within flexible receptor in CaverDock (2022)
Computational enzyme design for metabolic engineering (2021)
Estimating conformational landscapes from Cryo-EM particles by 3D Zernike polynomials (2023)
Kernel Tuning Toolkit (2023)
ZART: A Novel Multiresolution Reconstruction Algorithm with Motion-blur Correction for Single Particle Analysis (2023)
Umpalumpa: a framework for efficient execution of complex image processing workloads on heterogeneous nodes (2023)
Towards a Benchmarking Suite for Kernel Tuners (2023)
pyCaverDock: Python implementation of the popular tool for analysis of ligand transport with advanced caching and batch calculation support (2023)
A methodology for comparing optimization algorithms for auto-tuning (2024)
Towards Dynamic Autotuning of SpMV in CUSP Library (2024)
Acceleration of dRMSD Calculation and Efficient Usage of GPU Caches (2015)

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