SWC Advanced Microscopy Facility

All

22 repositories

multiphoton-qc
Public
Measure PSF FWHM along different axes
imaging point-spread-function scanimage
MATLAB
•
GNU Lesser General Public License v3.0
•5•25•35•0•Updated Feb 20, 2025Feb 20, 2025
swc-advanced-microscopy.github.io
Public
facility webpage
SCSS
•
MIT License
•26k•0•0•0•Updated Feb 20, 2025Feb 20, 2025
BakingTray
Public
Serial-section automated anatomy extension for ScanImage
neuroscience tomography imaging anatomy neuroanatomy 2-photon serial-section matlab microscopy scanimage
MATLAB
•
GNU Lesser General Public License v3.0
•5•12•166•0•Updated Feb 19, 2025Feb 19, 2025
standard_source_to_photons
Public
Repo to develop protocols for converting a standard fluorescent source to photons
Jupyter Notebook
•
MIT License
•0•0•1•0•Updated Feb 14, 2025Feb 14, 2025
StitchIt
Public
Stitching of large tiled datasets
neuroscience stitching microscopy imaging anatomy stitched-images tile matlab
MATLAB
•
GNU Lesser General Public License v3.0
•7•18•71•1•Updated Jan 21, 2025Jan 21, 2025
noise-practical
Public
Jupyter Notebook
•
BSD 3-Clause "New" or "Revised" License
•0•0•0•0•Updated Nov 14, 2024Nov 14, 2024
laser_calculator
Public
Laser safety calculator for 3b lasers
0•0•0•0•Updated May 22, 2024May 22, 2024
SWC_Optics_Course_Practicals
Public
Rich Text Format
•
The Unlicense
•0•0•3•0•Updated May 14, 2024May 14, 2024
btpytools
Public
Python-based BakingTray and StichIt helper tools
Python
•
GNU Affero General Public License v3.0
•0•2•10•0•Updated May 3, 2024May 3, 2024
SimplePyScanner
Public
Simple Python scanning software for demo purposes
python examples laser data-acquisition neuroimaging scanning microscopy 2-photon ni-daqmx
Python
•
GNU General Public License v3.0
•1•6•1•0•Updated Oct 16, 2023Oct 16, 2023
Python_DAQmx_examples
Public
DAQmx Examples using Python with NI's nidaqmx package
python hardware examples neuroscience data-acquisition daq ni-daqmx
Python
•
GNU General Public License v3.0
•3•12•1•0•Updated Oct 16, 2023Oct 16, 2023
SimpleMScanner
Public
Simple MATLAB scanning software for demo purposes
examples neuroimaging microscopy 2-photon ni-daqmx laser matlab data-acquisition scanning
MATLAB
•
GNU Lesser General Public License v3.0
•2•5•10•0•Updated Oct 16, 2023Oct 16, 2023
MATLAB_DAQmx_examples
Public
DAQmx Examples using MATLAB
hardware examples neuroscience data-acquisition daq matlab scanimage ni-daqmx
MATLAB
•
GNU Lesser General Public License v3.0
•13•29•8•0•Updated Oct 10, 2023Oct 10, 2023
2p_crosssection_viewer
Public
Webpage with interactive plot of commonly used 2p dye cross-sections
HTML
•
Apache License 2.0
•0•0•0•0•Updated Oct 6, 2023Oct 6, 2023
volView
Public
Simple image stack visualizer for MATLAB
gui viewer matlab volume
MATLAB
•
GNU Lesser General Public License v3.0
•1•3•0•0•Updated Oct 6, 2023Oct 6, 2023
image-analysis-python
Public
Materials for the SWC course on Image Analysis in Python
JavaScript
•1•0•0•0•Updated May 31, 2023May 31, 2023
linux_cli_intro
Public
Presentation for intro to Linux CLI using the Linux CLI
Shell
•
Creative Commons Attribution 4.0 International
•1•4•3•0•Updated May 2, 2023May 2, 2023
diffuserwavefrontsensor
Public
Implements a diffuser-based wavefront sensor
matlab optics wavefront-sensing
MATLAB
•2•0•7•0•Updated Oct 26, 2021Oct 26, 2021
HiLo_SIM
Public
Basic implementation of HiLo structured illumination algorithm in MATLAB
MATLAB
•
GNU Lesser General Public License v3.0
•0•5•0•0•Updated Dec 14, 2019Dec 14, 2019
ScanImageAPI_Examples
Public
ScanImage API Examples
api examples neuroscience scanning microscopy imaging
MATLAB
•
GNU Lesser General Public License v3.0
•2•4•0•0•Updated Dec 14, 2019Dec 14, 2019
ScanImageTileScan
Public
MATLAB-based ScanImage tile scanner
neuroscience microscopy imaging time-lapse motion-control
MATLAB
•
GNU Lesser General Public License v3.0
•1•4•1•0•Updated Dec 14, 2019Dec 14, 2019
lensdistort
Public
Correct barrel and pincushion distortion
matlab image-processing
MATLAB
•3•2•0•0•Updated Jun 18, 2018Jun 18, 2018