flimview 1.2.0

A software framework to handle, visualize and analyze FLIM data

flimview

Conda Installation

First create a python 3 conda environment

conda create -n flimview python=3 -y

To activate such environment

conda activate flimview

To install the need requirements

conda install -y -c conda-forge jupyterlab ipywidgets nodejs

To enable the widgets

jupyter labextension install @jupyter-widgets/jupyterlab-manager

and finally to install flimview from github

pip install git+https://github.com/Biophotonics-COMI/flimview.git --upgrade

Optional Packages

To run few things in parallel and other analysis you can install a few more packages

pip install scikit-image dask[complete] dask-jobqueue --upgrade

Example data

To get the example data run:

    from flimview import datasets
    # Get SDT example file
    datasets.fetch_sdt()
    # Get PTU file
    datatsets.fetch_ptu()

Examples

Check the notebooks examples here

Development

To contribute to this package, first clone it:

git clone https://github.com/Biophotonics-COMI/flimview.git

Then inside flimview

pip install -e .