Have you considered AQuA (Audio Quality Analyzer) for voice quality
assessment?
http://www.sevana.fi/voice_quality_testing_measurement_analysis.php
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