It's possible to work on an entire folder tree, or a particular subset of files, just using the output of some other command through a pipe. Something like:
C:\TrID>dir d:\recovered_drive /s /b | trid -ce -@
Definitions found: 5702
Analyzing...
File: d:\recovered_drive\notes
100.0% (.RTF) Rich Text Format (5000/1)
File: d:\recovered_drive\temp\FILE0001.CHK
77.8% (.OGG) OGG Vorbis Audio (14014/3)