Is there an opensource tool to merge videos alongside with encoding. Merge in a sense to merge vcd cd1 and vcd cd2. or to merge different chapters of dvd. can handbrake do this?

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VirtualDub would be my recommendation. Just follow the directions here.

http://www.makeuseof.com/tag/merge-multiple-video-files-with-virtualdub/

edit:

Dat files and vob files are both MPEG formats in different container files. If you want to output to mpeg, try AVIdemux. It's more updated.

http://www.avidemux.org/admWiki/doku.php

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cool works for AVI. How about merging .dat files on VCD and .vob files on DVD. – Aivan Monceller Jul 16 '11 at 6:24
I edited my answer. – surfasb Jul 16 '11 at 6:45
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