Hi,
Have you considered AQuA (Audio Quality Analyzer) for voice quality assessment?
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Compared with PESQ it gives P.800 MOS predictions, can discard delay in the beginning and end of the audio signal under test, provides CSV output of spectrum pairs and is working perfectly well in VoIP, PSTN, ISDN and GSM networks as well as a tool for audio processing algorithms development and compression optimization.
Thanks! Sevana