Tim Schäfer

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.

freesurferformats. GNU R package for reading and writing neuroimaging file formats. Not limited to FreeSurfer anymore, despite its name.

spirit-quake-maps-gpl. The sources of my maps or levels for the Quake series FPS games, published under the GPL.

NeuroFormats.jl. Handling of structural neuroimaging file formats for Julia.

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.

brainload. A python module designed to reduce your brain load while accessing FreeSurfer brain surface and morphometry data files of single subjects and groups.

neuroformats-rs. Handling of structural neuroimaging file formats for Rust.

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.

pkgfilecache. GNU R package that allows package authors to cache data files in user directories.

abide_preproc_smri_freesurfer6. Data from our own pre-processing of the ABIDE I sMRI dataset (1035 subjects) in FreeSurfer v6.

cpp_geodesics. Fast computation of geodesic distances and related mesh descriptors on (brain surface) meshes in C++ and OpenMP.

libfs. A header-only, no-dependency, C++11 library for accessing FreeSurfer neuroimaging file formats.

vplg. The Visualization of Protein-Ligand Graphs software that powers the PTGL webserver at http://ptgl.uni-frankfurt.de/. One of my PhD projects.

regfusionr. R implementation of registration fusion method for MNI152 - 305 mapping.

brainview. Python module to visualize morphometry data on 3D brain meshes. Based on matplotlib and mayavi. Prototype.

haze. Fast smoothing of per-vertex data on triangular meshes for R.

brainnet. Machine learning on neuroimaging data, for R.

brainview-rs. A simple real-time brain visualization tool for Rust, based on the three-d crate.

meshlearn. AI model to predict computationally expensive vertex-wise descriptors like the local gyrification index from the mesh structure.

neuro. Go module for reading and writing structural neuroimaging file formats. Supports FreeSurfer MGH, MGZ, and related formats.

pcx. Read PCX bitmap image files in R and convert to other formats.

reproducible_science. Introduction: towards reproducible science using version control and GNU R

comp_neuro_science. My playground for trying some computational neuro science tools. Just ignore this, you don't want it.

anonsurfer. Anonymization of freesurfer output based on metadata dropping and defacing.

system_config. My system configuration (bash_profile, bashrc, vimrc, ...) including my setup for popular neuroimaging software.

learn_musical_notes. Web-based training tool to learn reading musical notes, e.g. for playing the piano or guitar.

audio_rating. Web-based music aesthetics research tool for continuous, multi-dimensional rating of audio content with interactive waveform visualization

dfsp-spirit.github.io. Repo for my personal website, generated with Jekyll. Ignore.

qmapc. Map file parser and converter for the Quake FPS games

way2close. Unity C# space action game for mobile.

pyhaze. Fast smoothing of per-vertex data on triangular meshes for Python.

brainloc. Given a brain coordinate or cluster in MNI305 space, compute MNI152 and Talairach coordinates and find the closest brain regions.

js-object-util. A simple static utility class to access nested object properties. Inspired by Immutable API methods like hasIn and getIn.

jneuroformats. Reading and writing structural neuroimaging file formats for Java.

jsfun. A collection of fun stuff in processings.js and p5js, mainly tiny web games and animations..