dfsp-spirit
Bioinformatician, former Neuroscientist, and Software Developer. Currently Research Software Engineer @senckenberg
Senckenberg Society for Nature ResearchFrankfurt, Germany
Pinned Repositories
brainload
A python module designed to reduce your brain load while accessing FreeSurfer brain surface and morphometry data files of single subjects and groups.
freesurfer_parallel_scripts
Shell scripts to run FreeSurfer's recon-all in parallel on multi-core machines. Developed during my time in Christine Ecker's Lab at KGU.
freesurferformats
GNU R package for reading and writing neuroimaging file formats. Not limited to FreeSurfer anymore, despite its name.
fsbrain
R library for structural neuroimaging. Provides high-level functions to access (read and write) and visualize surface-based brain morphometry data for individuals and groups.
haze
Fast smoothing of per-vertex data on triangular meshes for R.
neuroformats-rs
Handling of structural neuroimaging file formats for Rust.
NeuroFormats.jl
Handling of structural neuroimaging file formats for Julia.
spirit-quake-maps-gpl
The sources of my maps or levels for the Quake series FPS games, published under the GPL.
vplg
The Visualization of Protein-Ligand Graphs software that powers the PTGL webserver at http://ptgl.uni-frankfurt.de/. One of my PhD projects.
wal
Quake modding toolkit for R. Can read, export and import Quake bitmap images in WAL and Q1 texture formats, read and export MDL and MD2 models, extract PAK and WAD archives.
dfsp-spirit's Repositories
dfsp-spirit/spirit-quake-maps-gpl
The sources of my maps or levels for the Quake series FPS games, published under the GPL.
dfsp-spirit/brainload
A python module designed to reduce your brain load while accessing FreeSurfer brain surface and morphometry data files of single subjects and groups.
dfsp-spirit/vplg
The Visualization of Protein-Ligand Graphs software that powers the PTGL webserver at http://ptgl.uni-frankfurt.de/. One of my PhD projects.
dfsp-spirit/regfusionr
R implementation of registration fusion method for MNI152 - 305 mapping.
dfsp-spirit/brainnet
Machine learning on neuroimaging data, for R.
dfsp-spirit/meshlearn
AI model to predict computationally expensive vertex-wise descriptors like the local gyrification index from the mesh structure.
dfsp-spirit/pcx
Read PCX bitmap image files in R and convert to other formats.
dfsp-spirit/reproducible_science
Introduction: towards reproducible science using version control and GNU R
dfsp-spirit/anonsurfer
Anonymization of freesurfer output based on metadata dropping and defacing.
dfsp-spirit/brainview-rs
A simple real-time brain visualization tool for Rust, based on the three-d crate.
dfsp-spirit/comp_neuro_science
My playground for trying some computational neuro science tools. Just ignore this, you don't want it.
dfsp-spirit/way2close
Unity C# space action game for mobile.
dfsp-spirit/brainloc
Given a brain coordinate or cluster in MNI305 space, compute MNI152 and Talairach coordinates and find the closest brain regions.
dfsp-spirit/jsfun
A collection of fun stuff in processings.js and p5js, mainly tiny web games and animations..
dfsp-spirit/bioinf_scripts
small scripts related to bioinformatics. Moved to my system_config repo.
dfsp-spirit/dfsp-spirit.r-universe.dev
R-universe config repo for https://dfsp-spirit.r-universe.dev. Just ignore this.
dfsp-spirit/fieldtrip
The MATLAB toolbox for MEG, EEG and iEEG analysis
dfsp-spirit/fsbrain_gallery
Example output of fsbrain. Contains comparably large media files (animations, images) for the website. Ignore.
dfsp-spirit/geodesic
Multiple source/target exact geodesic (shortest path) algorithm for triangular mesh (triangulated 2D surface in 3D)
dfsp-spirit/gproshan
geometry processing and shape analysis framework; currently, under construction as part of our research.
dfsp-spirit/meshlearn_models
Ready-to-use models trained using the ML pipeline in my meshlearn repo.
dfsp-spirit/ml_projects
Some just-for-fun data science and machine learning projects (mostly Python and GNU R)
dfsp-spirit/mri_transcriptomics
Gene set enrichment analysis of the transcriptomic associations of the T1-w/T2-w MRI.
dfsp-spirit/PA-R-Study-Manual
An online study guide for the SOA's predictive analytics exam.
dfsp-spirit/pyradiomics
Open-source python package for the extraction of Radiomics features from 2D and 3D images and binary masks.
dfsp-spirit/qmapc
Map file parser and converter for the Quake FPS games
dfsp-spirit/Rvcg
R-package providing mesh manipulation routines from VCGLIB
dfsp-spirit/shell-tools
Some handy shell scripts for BASH. I have these in ~/bin/ on all systems I use.
dfsp-spirit/three-d
A renderer written in Rust which compiles to both desktop (OpenGL) and web (WebAssembly + WebGL).
dfsp-spirit/wordpress-child-theme-twentyseventeen-privacy
Twenty seventeen child theme to improve privacy of web site visitors.