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Welcome to these forums.
Objects vs. Files:
Files are fairly obvious.
Objects include files, plus other items that are not simply on disk. Examples would include processes loaded into RAM, such as DLLs, which the operating system has loaded and runs in the background. At this moment, my Task Manager shows 97 processes running, which for my system is normal. Objects could also include Registry entries, Alternate Data Streams, Boot records, . . .
Depending on your command line parameters given on your scan, will determine what is scanned. Usually, scanning processes is necessary to ensure that the scanner is not compromised, prior to scanning the Files your are interested in scanning.
Here is my mind-dump on Command Line Scanning: Command Line Scanning, McAfee CLS, Batch
Hopefully this is helpful.