Pinned Repositories
I2K2022-SIM
I2K 2022 mcSIM tutorial
localize-psf
Code for localizing diffraction limited fluorescent objects and fitting the results to various different point-spread function (PSF) models.
mcSIM
Code for running a multicolor structured illumination microscopy (SIM) experiment using a DLP6500 digital micromirror device (DMD) and performing SIM reconstruction.
merfish3d-analysis
3D MERFISH data processing
napari-mcsim
Napari plugin automating structured illumination microscopy (SIM) reconstruction and diagnostics from the mcSIM package
napari-spot-detection
Detect diffraction limited spots in 2D and 3D, in standard or skewed microscopy images.
OPM
Control, reconstruction, and analysis code for oblique plane microscopy.
sparse-deconv-py
Official Python implementation of the 'Sparse deconvolution'-v0.3.0
SPIM_model
U-FISH
Deep learning based spot detection for FISH images.
QI2 lab's Repositories
QI2lab/mcSIM
Code for running a multicolor structured illumination microscopy (SIM) experiment using a DLP6500 digital micromirror device (DMD) and performing SIM reconstruction.
QI2lab/OPM
Control, reconstruction, and analysis code for oblique plane microscopy.
QI2lab/I2K2022-SIM
I2K 2022 mcSIM tutorial
QI2lab/localize-psf
Code for localizing diffraction limited fluorescent objects and fitting the results to various different point-spread function (PSF) models.
QI2lab/napari-spot-detection
Detect diffraction limited spots in 2D and 3D, in standard or skewed microscopy images.
QI2lab/Gpufit
GPU-accelerated Levenberg-Marquardt curve fitting in CUDA
QI2lab/merfish3d-analysis
3D MERFISH data processing
QI2lab/napari-mcsim
Napari plugin automating structured illumination microscopy (SIM) reconstruction and diagnostics from the mcSIM package
QI2lab/sparse-deconv-py
Official Python implementation of the 'Sparse deconvolution'-v0.3.0
QI2lab/SPIM_model
QI2lab/U-FISH
Deep learning based spot detection for FISH images.
QI2lab/2019-Kim-BiologyOpen
Image processing and analysis code for Kim et al 2019
QI2lab/cruzdb
python access to UCSC genomes database
QI2lab/MVRegFus
Python module for registering and fusing multi-view microscopy data
QI2lab/napari-micromanager
QI2lab/npy2bdv
Fast writing of numpy 3d-arrays into HDF5 and N5 Fiji/BigDataViewer files.
QI2lab/ProjectionSimulation
Simple simulation to compare standard and projection imaging
QI2lab/ray_trace_pb
Simple ray tracing in Python
QI2lab/rDL-SIM
A Tensorflow implementation of rationalized deep learning (rDL) based image denoising for microscopy images
QI2lab/spots3d
GPU accelerated spot finding and localization for both skewed (diSPIM, lattice, OPM) and standard geometry (widefield, confocal) 3D microscopy data.
QI2lab/storm-control
Microscope control software
QI2lab/IDT-using-Annular-Illumination
This is the MATLAB Implementation for Annular Illumination Intensity Diffraction Tomography (aIDT).
QI2lab/instanseg
QI2lab/navigate
navigate - open source light-sheet microscope controls
QI2lab/pycrofluidics
A Python module for controlling Elveflow microfluidic devices
QI2lab/rlgc
Richardson-Lucy deconvolution with local stopping given by gradient consensus