Explain the default file structure in a newly created AWS Cloud9 environment

Question

I want to understand in which directory I am supposed to create and initialize my Git repository to work with source code.

Whenever I create an AWS Cloud9 environment using the AWS Management Console with all default settings and then open the IDE in the browser, I see the following structure.

├── other default Linux folders....
└── home/
    └── ec2-user/
        ├── environment/
        │   ├── .c9/
        │   │   └── <autogenerated_files>
        │   └── README.md
        ├── node_modules/
        ├── package-lock.json
        └── package.json

What is the reason of having npm package initialized in ec2-user/ folder?

The package.json has the following content

{
  "dependencies": {
    "node-cleanup": "^2.1.2",
    "tmp": "^0.0.33"
  }
}

Do I need to ignore all of these files and simply create a folder inside environment/ to initialize my Git repository there? Or can I remove the ec2-user/ folder entirely and create a new folder to place my files in?