To get some order in your workflow, its often to get them out of the way and you can do this by editing the settings. To do this first open settings via File > Preferences > Settings or use the keyboard combination CTRL + ,
Once your settings is opened simply place the following lines
"**/*.js": {"when": "$(basename).ts"},
"**/*.map": {"when": "$(basename).map"}
My whole file looks like this :
{
"files.exclude": {
"**/.git": true,
"**/.DS_Store": true,
"**/*.js": {"when": "$(basename).ts"},
"**/*.map": {"when": "$(basename).map"}
}
}
This doesn't hide all js files, only the files which have a typescript file.