How to Apply Company Theme and manage Global Nav and Footer Links using PnP for Communication Sites

I am doing Site Design provisioning via PnP Template and Azure Automation Powershell. However, I find that the generated template is incomplete and I need to do the following things manually:

• Manage Global navigation
  • Remove default "Home" link
  • Remove default "Site Contents" link
• Change the Look [Theme]
  • Apply Company Theme
• Change the look [Header]
  • Set to use Background 4th option
  • Upload Site Logo to Site Assets folder
• Change the look [Navigation]
  • Set to use "Cascading" instead of Megamenu
• Change the look [Footer]
  • Set Footer Name Visibility to show and populate Footer Name
  • Populate Footer Links

So far, the only thing I was able to automate was showing the footer, but I haven't found any code for the rest. I tried the Remove-PnPNavigationNode command but it seems it doesn't work for Communication Sites.

Is there any way for me to automate the above manual tasks using PnP PowerShell?