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-- There is no "set" rules for renaming a manifest, so we must adapt to patterns. There are some apks that have original package names as "android", "miui", "com.htc", etc. These are not meant for renaming, but exist to align that apk to a specific OEM framework system. (EX HTC system apks have a package id of com.htc). However, this pattern isn't true when framework apks are involved, as the intended behavior is to rename the package from xxx to com.htc (as an example). -- We solve this by first identifying the active package via the packageId instead of package with most ResSpecs (we fall back on that though) -- then with two hardcoded arrays of UNKNOWN_PACKAGES and ALLOWED_PACKAGES
Apktool
It is a tool for reverse engineering 3rd party, closed, binary Android apps. It can decode resources to nearly original form and rebuild them after making some modifications; it makes possible to debug smali code step by step. Also it makes working with app easier because of project-like files structure and automation of some repetitive tasks like building apk, etc.
It is NOT intended for piracy and other non-legal uses. It could be used for localizing, adding some features or support for custom platforms and other GOOD purposes. Just try to be fair with authors of an app, that you use and probably like.