Pinned Repositories
compbiotutorials-2023
d_light
cuda pixel-by-pixel operations on greyscale tiff images
hugin-multiscan
c++ code to generate shell script that executes panorama stitching of multiple flat images with hugin/panotools
wallaby
ImageJ macros I use to semi-automatically process and analyse 2d microscopy images of cortical bone tissue. Could facilitate other 2d semi-automatic image analyses as well.
BoneJ2
Plugins for bone image analysis
brainglobe-segmentation
Segmentation of anatomical structures in a common coordinate space
brainreg
Automated 3D brain registration with support for multiple species and atlases.
brainrender
a python based software for visualization of neuroanatomical and morphological data.
brainrender-napari
A napari plugin to render BrainGlobe atlases and associated data as layers.
cellfinder
Automated 3D cell detection in very large images
alessandrofelder's Repositories
alessandrofelder/compbiotutorials-2023
alessandrofelder/napari-nwb
A napari reader for JPGs from a remote NWB file
alessandrofelder/2021-07-19-UCL-software-carpentry-online
Online Software Carpentry workshop, 19th-22nd July 2021, "mornings" only.
alessandrofelder/alessandros_pipeline
alessandrofelder/average_squares
alessandrofelder/bg-atlasapi-feedstock
A conda-smithy repository for bg-atlasapi.
alessandrofelder/brainreg-feedstock
A conda-smithy repository for brainreg.
alessandrofelder/brainrender-napari-feedstock
A conda-smithy repository for brainrender-napari.
alessandrofelder/cellfinder
Automated 3D cell detection and registration of whole-brain images
alessandrofelder/communers
alessandrofelder/cw23-project-management-workshop
alessandrofelder/dummy-gh-actions
to do some quick tests of github actions
alessandrofelder/earthquakes
Exercise for working with earthquakes data
alessandrofelder/epitools-matlab
EpiTools image processing toolkit for MATLAB
alessandrofelder/hackday-pybioimage
Repo for UCL Festival of Code Hackday python group working on modernizing and extending the python bioimage analysis tutorial.
alessandrofelder/hdf5
Official HDF5® Library Repository
alessandrofelder/libsbml
LibSBML is a native library for reading, writing and manipulating files and data streams containing the Systems Biology Markup Language (SBML). It offers language bindings for C, C++, C#, Java, JavaScript, MATLAB, Perl, PHP, Python, R and Ruby.
alessandrofelder/napari
napari: a fast, interactive, multi-dimensional image viewer for python
alessandrofelder/napari-nwb-explore
Some jupyter notebooks exploring reading JPGs from remote NWB repos
alessandrofelder/python-tooling
alessandrofelder/quarto-workshop
Quarto Workshop for RSE Conf 2022
alessandrofelder/recipes-2021
alessandrofelder/rsd-engineeringcourse
Course materials for Research Software Engineering course.
alessandrofelder/rse-best-practices-playground
A temporary repo to play with coding good practice concepts (BIIG hackday 2024)
alessandrofelder/RSE-Classwork
alessandrofelder/test-model-view-qtbot-clicks
alessandrofelder/test-pytest-qt-raises
toy repo to help with debugging pytest-qt
alessandrofelder/times-tests
An exercise to practice writing tests
alessandrofelder/Trabecular_Segmentation_Avizo
Method for automatically segmenting trabecular and cortical bone in CT scans, using Avizo.
alessandrofelder/usrse.github.io
US RSE umbrella web page