habi
Working father, generic geek and ex-messenger with a PhD in ultrahigh resolution tomography. I love the outdoors, taking photos and much more.
Institute of Anatomy, Unversity of Bern, SwitzerlandBern, Switzerland
Pinned Repositories
acinar-analysis-manuscript
EAWAG-manuscript
A small manuscript on the preparation and tomographic scanning of a corpus of cichlids from the EAWAG. And a bit on the treatment of the data.
GlobalDiagnostiX
Code and stuff written for my work on http://globaldiagnostix.org/
latex
Some LaTeX code snippets I've hacked together over the years.
latex-test
Results (automatically) in http://habi.github.io/latex-test/main.pdf
Lecture.Microtomography
A lecture on (micro)tomography
OpenSCAD
A collection of OpenSCAD models; stuff to fix private 'issues' and gifts
PhD-Thesis
My PhD-Thesis, copied from the virtual SVN-server I installed at the Institute of Anatomy of the University of Bern in Switzerland and migrated to git.
Zebra-Fish-Gills
Analysis for https://doi.org/10.1371/journal.pone.0228333
zmk-tooth-cohort
Scanning +100 teeth with our sample changer
habi's Repositories
habi/latex
Some LaTeX code snippets I've hacked together over the years.
habi/OpenSCAD
A collection of OpenSCAD models; stuff to fix private 'issues' and gifts
habi/acinar-analysis-manuscript
habi/concavity
Concave Hull boundary polygon for an array of points and concave and convex polygon vertex detection
habi/every_door
A dedicated app for collecting hundreds of POI for OpenStreetMap
habi/FluWieland.github.io
habi/GoMap
OpenStreetMap editor for iPhone/iPad
habi/imageio
Python library for reading and writing image data
habi/K3D-jupyter
K3D lets you create 3D plots backed by WebGL with high-level API (surfaces, isosurfaces, voxels, mesh, cloud points, vtk objects, volume renderer, colormaps, etc). The primary aim of K3D-jupyter is to be easy for use as stand alone package like matplotlib, but also to allow interoperation with existing libraries as VTK.
habi/liver-nchp
Small notebook to explain our work for the manuscript on non-cirrhotic portal hypertension hepatic vascular remodeling in the liver
habi/microfilm
Creating figures and animations for multi-channel images with a focus on microscopy.
habi/mtf
How to calculate edge function and the modulation transfer function. Or at leas how *I* calculate it.
habi/MyUnibeTalk
Template for a (LaTex) talk with the Unibe template
habi/napari-time_series_plotter
A napari Plugin for visualisaton of pixel values over time (t + 3D, t+ 2D) as graphs.
habi/one_photo_everyday
Contains the code to create a fun gif in which Noah Kalina ages 20 years in 20 seconds.
habi/OpenLoveMap
Love in the palm of your hand
habi/osmstreak
Map every day with OSM Streak
habi/PhotoScript
Automate Apple / MacOS Photos app with python. Wraps applescript calls in python to allow automation of Photos from python code.
habi/php-tracks-recorder
PHP front & backend for owntracks & overland payload
habi/qgis-outdoor-map
QGIS project for an outdoor map based on OpenStreetMap data.
habi/srz-edi
Schutz & Rettung - Emergency Data Inspector
habi/Talk.2017.AnatomyInternalSeminar
habi/Talk.2021.Micro-CTUsersMeeting
habi/Talk.2021.ToScA
habi/Talk.2022.TeachingInHigherEducation
A short concept explanation for https://ilias.unibe.ch/goto_ilias3_unibe_crs_2386876.html
habi/vizarr
A minimal, purely client-side program for viewing Zarr-based images with Viv & ImJoy.
habi/vscode-zotero
Zotero Better Bibtex citations for VS Code
habi/zmk-tooth-cohort-method-manuscript
Manubot repository for Tooth-Cohort analysis method. The 'original' version was written with manuscripts.io
habi/acinar-analysis
Analysis for https://doi.org/10.1101/786681
habi/steps
Visualizing my step data acquired over the years