napari-cosmos-ts 0.1.8

napari plugin for colocalization single-molecule spectroscopy (CoSMoS) time series (TS) analysis

napari-cosmos-ts

napari plugin for colocalization single-molecule spectroscopy (CoSMoS) time series (TS) analysis.

Install

1. Install the conda package manager. Simplest is to download Miniconda and run the installer.
2. Create a virtual python environment named napari-env (or name it whatever you want) in which to install napari and this plugin. In a command shell or terminal run the following command:

conda create --name napari-env python

3. Activate your virtual environment. !!! Note you will have to do this every time you open a new command shell or terminal. In a command shell or terminal run the following command:

conda activate napari-env

4. Install napari into your virtual environment. In a command shell or terminal where you have activated your virtual environment run the following command:

pip install "napari[all]"

5. Install napari-cosmos-ts into your virtual environment. In a command shell or terminal where you have activated your virtual environment run the following command:

pip install napari-cosmos-ts

Or for the latest version of napari-cosmos-ts:

pip install napari-cosmos-ts@git+https://github.com/marcel-goldschen-ohm/napari-cosmos-ts

Update

1. Activate your virtual environment (see Install, replace napari-env with the name of your environment). In a command shell or terminal run the following command:

conda activate napari-env

2. Update napari-cosmos-ts in your virtual environment. In a command shell or terminal where you have activated your virtual environment run the following command:

pip install napari-cosmos-ts --update

Or for the latest version of napari-cosmos-ts:

pip install napari-cosmos-ts@git+https://github.com/marcel-goldschen-ohm/napari-cosmos-ts --update

Run

1. Activate your virtual environment (see Install, replace napari-env with the name of your environment). In a command shell or terminal run the following command:

conda activate napari-env

2. Launch the napari viewer. In a command shell or terminal where you have activated your virtual environment run the following command:

napari

3. Launch the napari-cosmos-ts plugin. From the napari viewer Plugins menu, select Colocalization Single-Molecule Time Series (napari-cosmos-ts). This should bring up a docked widget within the viewer. Now you are good to go!

User Guide

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