Name: Tim Schäfer
Type: User
Company: Senckenberg Society for Nature Research
Bio: Bioinformatician, former Neuroscientist, and Software Developer. Currently Research Software Engineer @senckenberg
Location: Frankfurt, Germany
Blog: https://ts.rcmd.org
Tim Schäfer's Projects
Data from our own pre-processing of the ABIDE I sMRI dataset (1035 subjects) in FreeSurfer v6.
Anonymization of freesurfer output based on metadata dropping and defacing.
small scripts related to bioinformatics. Moved to my system_config repo.
A python module designed to reduce your brain load while accessing FreeSurfer brain surface and morphometry data files of single subjects and groups.
Given a brain coordinate or cluster in MNI305 space, compute MNI152 and Talairach coordinates and find the closest brain regions.
Machine learning on neuroimaging data, for R.
Python module to visualize morphometry data on 3D brain meshes. Based on matplotlib and mayavi. Prototype.
A simple real-time brain visualization tool for Rust, based on the three-d crate.
My playground for trying some computational neuro science tools. Just ignore this, you don't want it.
Fast computation of geodesic distances and related mesh descriptors on (brain surface) meshes in C++ and OpenMP.
May Github profile header, displayed when visiting my profile page.
Repo for my personal website, generated with Jekyll. Ignore.
R-universe config repo for https://dfsp-spirit.r-universe.dev. Just ignore this.
A conda-smithy repository for esi-syncopy.
The MATLAB toolbox for MEG, EEG and iEEG analysis
Shell scripts to run FreeSurfer's recon-all in parallel on multi-core machines.
GNU R package for reading and writing neuroimaging file formats. Not limited to FreeSurfer anymore, despite its name.
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.
Example output of fsbrain. Contains comparably large media files (animations, images) for the website. Ignore.
FAIRsFAIR Research Data Object Assessment Service
Multiple source/target exact geodesic (shortest path) algorithm for triangular mesh (triangulated 2D surface in 3D)
geometry processing and shape analysis framework; currently, under construction as part of our research.
Fast smoothing of per-vertex data on triangular meshes for R.
Website sources for the Apache Jena website
Reading and writing structural neuroimaging file formats for Java.
A simple static utility class to access nested object properties. Inspired by Immutable API methods like hasIn and getIn.
A collection of fun stuff in processings.js and p5js, mainly tiny web games and animations..
A header-only, no-dependency, C++11 library for accessing FreeSurfer neuroimaging file formats.
Script to move a number of IMAP mail accounts from an old to a new server over IMAP using offlineimap
React
Typescript
Django
Laravel
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Alibaba
D3
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