The Latics' manager believes his right-hand man will remain at the DW Stadium, despite rumours linking the former striker with a move to Burnley after Eddie Howe's exit
Jones followed Martinez to Lancashire from Swansea in 2009 and previously played for the club between 1996 and 1999.
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"It's always a massive compliment when other clubs see the good work that you are doing at your football club," Martinez said to the Wigan Evening Post.
"That's the case for players and it also applies for the staff as well, in this case Graeme. What we have to do is keep focused on the job we have to do here and goals we have set ourselves to achieve this season.
"This is a really important time at our football club and it could turn out to be a significant building block in our legacy as a football club.
"I'm sure he'll take the rumours on board but he won't let it affect his work in preparing for Saturday's game.
"It's something that goes with the territory when you are involved in football. When you do the right things, this sort of thing comes along - the same as when you don't do the right things, other things come along."