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https://github.com/sarthakjariwala/python_gui_apps
GLabViz - Interactive Analysis and Visualization Application for Scientific Data written in Python using Qt and pyqtrgaph
https://github.com/sarthakjariwala/python_gui_apps
data-analysis data-visualization databrowser fluorescence fluorescence-decays-analysis fluorescence-microscopy-analysis fluorescence-microscopy-imaging image-analysis lifetime-analysis pyqtgraph python python-gui-apps qt qt-gui spectra-analysis spectral-analysis spectroscopy spectrum-analyzer uv-vis
Last synced: 3 months ago
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GLabViz - Interactive Analysis and Visualization Application for Scientific Data written in Python using Qt and pyqtrgaph
- Host: GitHub
- URL: https://github.com/sarthakjariwala/python_gui_apps
- Owner: SarthakJariwala
- License: mit
- Created: 2019-03-31T23:14:57.000Z (almost 6 years ago)
- Default Branch: master
- Last Pushed: 2022-12-08T06:20:54.000Z (about 2 years ago)
- Last Synced: 2024-10-05T00:39:55.337Z (4 months ago)
- Topics: data-analysis, data-visualization, databrowser, fluorescence, fluorescence-decays-analysis, fluorescence-microscopy-analysis, fluorescence-microscopy-imaging, image-analysis, lifetime-analysis, pyqtgraph, python, python-gui-apps, qt, qt-gui, spectra-analysis, spectral-analysis, spectroscopy, spectrum-analyzer, uv-vis
- Language: Python
- Homepage:
- Size: 2.21 MB
- Stars: 18
- Watchers: 2
- Forks: 9
- Open Issues: 18
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Awesome Lists containing this project
README
# GLabViz
Graphical User Interface (GUI) Python apps written in python using qt and [pyqtgrpah](http://www.pyqtgraph.org/) for quick analysis of scientific data. It also includes the ability to convert data to *H5* if needed.
_**Python is not required to use GLabViz**_ (see **How to use?**)
[**DOWNLOAD HERE**](https://github.com/SarthakJariwala/Python_GUI_apps/releases)
The primary users for this Python package application are Ginger Lab members at the University of Washington, Seattle but is licensed under MIT License and open for everyone to use.
## Includes
* **Fluorescence Lifetime Analysis**
* Analyze lifetime
* Fit data with or without IRF
* Fit with stretched, single, or double exponential functions by diff_ev or fmin_tnc
* Calculate surface recombination velocity
* Export graph and fit results
* **Spectra Analysis**
* Analyze single spectrum
* Fit with or without background and white light
* Fit with single Lorentzian, single Gaussian, double Gaussian, triple Gaussian models
* Export graph and fit results
* Analyze spectra scan
* Load spectra scan data in .h5 or .pkl files
* Plot raw scan data
* Plot scan intensity sums
* Plot fitted scan by pk_pos, fwhm, sigma, or height
* Export fitted scan
* .pkl to .txt, .pkl to .h5 converters
* **Fluorescence Lifetime Imaging Microscopy (FLIM) Data Analysis**
* Load lifetime scans in .h5 or .pkl files
* Plot histogram intensity sums and analyze PSF
* Export intensities array and intensities image
* Plot raw histogram data and analyze lifetime
* Compare lifetime in two different regions
* **Photluminescence Quantum Efficiency (PLQE) Analysis**
* Plot PLQE data
* Calculate PLQE
* **UV-Vis Data Analysis**
* Plot UV-Vis data
* Correct UV-Vis data for scattering
* Plot Tauc data
* Calculate bandgap
* Export UV-Vis and Tauc plots
* **General *H5* View and Plot**
* Load .h5 file to view file structure
* Plot datasets as a graph or an image
* **H5 and PKL File Viewer**
* Load .h5 or .pkl file to view file structure
* **Image Analysis**
* Load image on SPOT or Pixera settings, or specify pixel size
* Handle RGB and greyscale images
* Select magnification
* Color profile horizontally or vertically
## Screenshots
### Welcome Screen
### Lifetime Analysis
### Spectra Analysis
### FLIM Analysis
### UV-Vis Analysis
### H5 & Pkl View
### H5 Quick Plot
### Image Analysis
## How to use?
### Standalone App - without Python or any dependencies (_only for Windows users, comming soon for Mac users_)
* Under the [releases](https://github.com/SarthakJariwala/Python_GUI_apps/releases) page, download the latest release of the _**DataBrowser**_ zip file
* Extract the zip file and run _**DataBrowser.exe**_
### With Python and its dependencies
```
git clone https://github.com/SarthakJariwala/Python_GUI_apps.git
```
* Install all dependencies
* Run the application by double-clicking DataBrowser.py.
* OR Run it from command-line while in the PythonGUI_apps folder:
```
python DataBrowser.py
```
#### Dependencies
* [ScopeFoundry](https://github.com/ScopeFoundry/ScopeFoundry)
* [pyqtgraph](http://www.pyqtgraph.org/)
* numpy
* pyqt
* qtpy
* h5py
* matplotlib
* scipy
* [lmfit](https://lmfit.github.io/lmfit-py/)
* [customplotting](https://github.com/SarthakJariwala/Custom-Plotting)
#### Installing dependencies from command-line
```
conda install numpy pyqt qtpy h5py pyqtgraph
pip install ScopeFoundry
pip install matplotlib scipy lmfit customplotting==0.1.4.dev0
```