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/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.
dfsp-spirit/freesurferformats
GNU R package for reading and writing neuroimaging file formats. Not limited to FreeSurfer anymore, despite its name.
dfsp-spirit/NeuroFormats.jl
Handling of structural neuroimaging file formats for Julia.
dfsp-spirit/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/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.
dfsp-spirit/neuroformats-rs
Handling of structural neuroimaging file formats for Rust.
dfsp-spirit/pkgfilecache
GNU R package that allows package authors to cache data files in user directories.
dfsp-spirit/abide_preproc_smri_freesurfer6
Data from our own pre-processing of the ABIDE I sMRI dataset (1035 subjects) in FreeSurfer v6.
dfsp-spirit/libfs
A header-only, no-dependency, C++11 library for accessing FreeSurfer neuroimaging file formats.
dfsp-spirit/brainview
Python module to visualize morphometry data on 3D brain meshes. Based on matplotlib and mayavi. Prototype.
dfsp-spirit/cpp_geodesics
Fast computation of geodesic distances and related mesh descriptors on (brain surface) meshes in C++ and OpenMP.
dfsp-spirit/haze
Fast smoothing of per-vertex data on triangular meshes for R.
dfsp-spirit/neuro
Go module for reading and writing structural neuroimaging file formats. Supports FreeSurfer MGH, MGZ, and related formats.
dfsp-spirit/system_config
My system configuration (bash_profile, bashrc, vimrc, ...) including my setup for popular neuroimaging software.
dfsp-spirit/dfsp-spirit.github.io
Repo for my personal website, generated with Jekyll. Ignore.
dfsp-spirit/jneuroformats
Reading and writing structural neuroimaging file formats for Java.
dfsp-spirit/pyhaze
Fast smoothing of per-vertex data on triangular meshes for Python.
dfsp-spirit/aspell
dfsp-spirit/dfsp-spirit
May Github profile header, displayed when visiting my profile page.
dfsp-spirit/esi-syncopy-feedstock
A conda-smithy repository for esi-syncopy.
dfsp-spirit/fuji
FAIRsFAIR Research Data Object Assessment Service
dfsp-spirit/jena-site
Website sources for the Apache Jena website
dfsp-spirit/mass-offlineimap
Script to move a number of IMAP mail accounts from an old to a new server over IMAP using offlineimap
dfsp-spirit/nfdigithub
dfsp-spirit/OSSRH-93565
dfsp-spirit/photowebpage
A simple Python script to generate a static HTML gallery page that displays all images in a directory. Intended for my personal use only. Ignore this.
dfsp-spirit/playground
My playground for trying out software, often computational neuroscience packages. Ignore this, you don't want it.
dfsp-spirit/presentation_slides_git_for_scientists
Slides for my presentation: 'Introduction to Git for Scientists'
dfsp-spirit/ptgl-openapi
OpenAPI specification for the API of the Protein Topology Graph Library (PTLG).
dfsp-spirit/syncopy
Systems Neuroscience Computing in Python: user-friendly analysis of large-scale electrophysiology data