The Calculating Quality Reporting Service (CQRS) has been introduced to replace the 'quality management and analysis system' (QMAS) - which has calculated GP practices' QOF payments since 2005.
The new system was launched to reduce the time practices spend calculating QOF achievement and payments, NHS England said.
GPC leaders said they would report any problems with the system to NHS England in the next few weeks.
‘We want to ensure it works as planned,’ said GPC negotiator Dr Chaand Nagpaul. ‘We need to ensure data is recorded in a way that allows proper and accurate payments.
‘Practices have already been notified of the change. They should be vigilant to ensure that payments are coming through.
‘With all the contract changes, clearly we will be keen to ensure that the system is working as intended. We will report back to NHS England and we will rely on feedback on a local level.’
QMAS will continue to operate until the 2 July at 8pm, to allow for end of year reporting for QOF 12/13.
Online CQRS training is available to practices from the Health and Social Care Information Centre.