phcerdan
Open Source and Open Science enthusiast. PhD. in BioPhysics. Usually working with images, networks and AI in the healthcare industry.
@Innolitics
Pinned Repositories
InsightJournal
Insight Journal
ITK
Insight Toolkit (ITK) -- Official Repository. ITK builds on a proven, spatially-oriented architecture for processing, segmentation, and registration of scientific images in two, three, or more dimensions.
ITKIsotropicWavelets
External Module for ITK, implementing Isotropic Wavelets and Riesz Filter for multiscale phase analysis.
ITKTotalVariation
External Module for Total Variation Algorithms, providing wrap for https://github.com/albarji/proxTV
configuration_files
My configuration files, including dot_files, vim, and scripts.
histogram
Histogram in C++11, 1D, simple header-only, inspired by R, calculate and optimize breaks automatically. Accepts different precissions.
perm-montecarlo
PERM: Prune and Enriched Rosenbluth Method. A sequential Montecarlo algorithm with resampling
SGEXT
Spatial Graph Extractor. Library and scripts to study graphs extracted from binary images, or to generate graphs and analyze them completely in-silico. Used at least in biopolymers simulations and vascular networks.
vtkImGuiAdapter
Adapter to add imgui to an existing vtkRenderWindow using SDL2.
wolfram_model
Python Wrappings for exploring Set Substitution Systems (Wolfram Models)
phcerdan's Repositories
phcerdan/FFTRadialIntensity
Compute radial intensity of the FFT of input image. Used to compare image from TEM with SAXS (scattering). Output: Intensity vs q
phcerdan/isotropic_wavelet_collection
phcerdan/SRepExtension
Collection of Skeletal Model Extensions for 3D Slicer/SlicerSALT
phcerdan/aabbcc
Dynamic AABB trees in C++ with support for periodic systems.
phcerdan/beamer_DWDStatisticsMatrixSPIE2019
phcerdan/BoneInjuryTextureSPIE2019
beamer-SPIE2019BoneInjury
phcerdan/BoneTextureExtension
phcerdan/CMake
Mirror of CMake upstream repository
phcerdan/CompareVolumes
Slicer module providing high level layout and visualization options
phcerdan/defx-icons
Filetype icons for https://github.com/Shougo/defx.nvim
phcerdan/DGtalTools
Tools associated with DGtal Library
phcerdan/dockbuild
Compiling environments in Docker images.
phcerdan/EMSIPON
Mesoscopic Simulations of Polymers
phcerdan/flann
Fast Library for Approximate Nearest Neighbors
phcerdan/gbtl
GraphBLAS Template Library (GBTL): graph algorithms and primitives using semiring algebra as defined at graphblas.org
phcerdan/hoomd-blue
Molecular dynamics and Monte Carlo soft matter simulation on GPUs.
phcerdan/ITKSoftwareGuide
Sources for the ITKSoftwareGuide.
phcerdan/ITKTextureFeatures
Fast, Texture Feature Maps from N-Dimensional Images
phcerdan/LandmarkRegistration
An interactive registration tool that manages viewing and manipulating of sets of fiducials
phcerdan/MultiVolumeExplorer
3D Slicer module to support exploration (charting, playback) of the multi-volume data.
phcerdan/MultiVolumeImporter
A 3D Slicer module for to support import of multi-volume data from non-DICOM sources, and provide plugin for importing such data from images saved in DICOM.
phcerdan/nanoflann
nanoflann: a C++11 header-only library for Nearest Neighbor (NN) search with KD-trees
phcerdan/ProjectWeek
Website for NA-MIC Project Weeks
phcerdan/scikit-build-sample-projects
Sample projects demonstrating use of scikit-build
phcerdan/Slicer-DataStore
Slicer extension - front end to the Midas journal allowing to easily upload/download MRB files
phcerdan/Slicer-OtsuThresholdImageFilter
Legacy Slicer module - This filter creates a binary thresholded image that separates an image into foreground and background components
phcerdan/SlicerSALT
An open-source, free comprehensive software that will allow biomedical scientists to precisely locate shape changes in their imaging studies. This software called Slicer Shape AnaLysis Toolbox (SlicerSALT), will enhance the intuitiveness and ease of use for such studies, as well as allow researchers to find shape changes with higher statistical power. Altogether this constitutes a crucial resource for the imaging field that will enable many and important new findings in biomedical imaging studies.
phcerdan/SlicerSimpleFilters
A Module for Slicer3D to provide a simple GUI to image filters from the Insight Toolkit.
phcerdan/SPIE2019_BoneInjury
phcerdan/vmtk
the Vascular Modeling Toolkit