The survey will ask patients to rate GPs and practice staff from very good to very poor on various aspects of the care they provide, and ask if patients want practices open on Sundays.
Surveys will be sent to 5 million patients and the answers are worth £8,000 to the average practice.
GPC chairman Dr Laurence Buckman said: 'We are concerned that the changes mean we won't be able to draw meaningful comparison with previous years' results. It is also a shame that the DoH has discontinued the practice-based survey.'
He said the chance to respond immediately gave a better reflection of patients' views.
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