ECoG-electrode signals relationship in cat visual cortex

A thesis project conducted in 2022/2023 at the Computational Systems Neuroscience Group (CSNG) of Charles University's Faculty of Mathematics and Physics. The project aims to study relationships between ECoG and electrode signals in the visual cortex of cats.

Project organisation

The project should be organized as follows:

├── tmp  <-------------------# Not used files
├── cfg <--------------------# Project-wide configuration (like conda setup)
├── doc  <-------------------# Any documents
├── exp  <-------------------# Analysis folder
│   └── <name_of_analysis> <-----# An example analysis
│            ├── tmp   <----------# Any temporary files
│            ├── dat  <-----------# Any data generated by workflows
│            ├── exp_dscr.md <----# Short analysis description
│            └── script1.py <--------# The script of the analysis
├── data  <-------------------# Project-wide data
│     ├── raw  <-------------------# A folder for raw data
│     └── processed <--------------# A folder for processed data
│               ├── <exp_code> <---# Data folder (by experiment code we refer to the name of specific recording)
│               └── dat_dscr.md <-----# Short data description
├── res  <-------------------# Project-wide results
│	└── <name_of_analysis> ---# An example Results
│            └── plot1.png <--------# The plot of the analysis
├── README.md
└── src  <-------------------# Project-wide code

Project setup

Conda

The project uses conda to manage the environment. To install conda, follow the instructions here. Once conda is installed, you can install the project environment with environment.yml file:

conda env create -f cfg/environment.yml

To activate the environment, run:

conda activate neuro

Data

Data were recorded by experimental group of Diego Contreras at the University of Pennsylvania and can be only provided upon request.