New answers tagged network-scanners
You can use Wireshark to extract conversation statistics from the packet captures. This information can then be sorted through to determine which ports are used regularly: This screen is from the Wireshark Statistics->Conversations menu items. It also has a "Copy" button which will allow you to get this data as CSV; you could then extract destination ...
I don't know if i understand your question well enough, but to me this sounds like all you really want is to open the pcapng-file(s) in Wireshark. Maybe my answer is totally off the track. If this is the case, please specify your question further.
OWASP Testing guide is your friend. In case a checklist is enough you might go through The OWASP Application Security Verification Standard
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