(assuming you have anaconda installed)

• create a conda environment using conda_py310_linux.yml or conda_py310_mac_win.yml
• Take note tag of the latest release of PyView from here.
• Install PyView using pip install git+https://[email protected]/galizia-lab/pyview.git@<tag name>

Please consult this page on our wiki for detailed guides on installation and updating as normal users and as developers.

1. Open a terminal/Powershell and activate the environment created for VIEW). For example conda activate view_py310
2. Try launching PyView with the command "view".

A quick hands-on tour of the GUI and batch processing capabilities of PyView is provided here, using a synthetic dataset. Before you begin, make sure to copy the folder "synthetic_data" into a place of your system where you keep data. (If you installed as a developer, the folder is in the program tree. If you installed as a simple user, you should download the folder from the github location).

We have published a collection of example datasets for PyView, which can be downloaded by following steps 1 and 2 from here. This contains datasets from many different experimental setups and contains data in many formats, as has been detailed in the file "pyview_test_data/Readme.md" (or better, view it here as a well-formatted markdown version). Each dataset also contains YML and list files needed to load associated raw data. Try the following GUI/scripting workflows with them!

(click on links to find guides for corresponding steps)

1. Load data of one or more measurements ▶️ Select data ▶️ Generate Overview
2. Load data of one or more measurements ▶️ Select data ▶️ Generate Movie
3. Load data of one or more measurements ▶️ Transfer data to ILTIS ▶️ Browse data
4. Load data of one or more measurements ▶️ Transfer data to ILTIS ▶️ Save Coor/Area files for an animal or for a measurement

NOTE: All these workflows require raw datasets to be organized in the recommended folder structure(guide), measurement lists be created for each dataset (guide) and a YML file created for the project (guide)

1. Tapestries: Create and arrange summary images for one or more animals in a grid (guide) for visual comparison (FAQs).
2. Exporting movies: Convert raw data into different formats (like AVI, MPG, TIFF, etc) with specific conversion and annotation settings(guide).
3. Saving traces: Estimate traces of components that were manually or automatically demarcated using aggregation functions such as the mean (guide).
4. Exporting Processed data: Export processed data (ratio/dff and spatial response patterns) into MAT files(guide), etc.

Here is a collection of pages and resources about using PyView.