Recent reports suggested that the Swans chief met with the south Wales club's senior players to hear their concerns with the former Getafe boss' methods.
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However, Jenkins has moved to publicly dismiss the claims, insisting that the squad are simply taking time to adapt to a new approach.
"As with any change in manager, particularly at a club who have been successful, it will take time to settle down," Jenkins told the Daily Mail.
"Everyone has a different approach and this is a normal issue for us after Brendan Rodgers went to Liverpool.
"Michael knew the philosophy of the club when he came here and that won't change whether he is the manager or not. They all agree to manage the club a certain way."