Midfielders Martin Woods (calf), Paul Keegan (thigh) and David Syers (ankle) remain absent but Flynn has options should he wish to makes changes to his line-up.
Defender James Husband, midfielder James Harper and strikers Billy Paynter, Iain Hume and Emile Sinclair all started on the bench as the npower League One leaders beat Swindon 1-0 at home on Monday.
Ahead of the game against seventh-placed Tranmere, Flynn said: "I think we're good enough to be top. What we do is the most important thing and we'd rather be the team being chased than doing the chasing.
"Tranmere have been very impressive and unfortunately they've had some injuries, which is hard when you have a small squad. Ronnie Moore has blended them into a good team and he has used the loan market very well."
- Sports & Recreation
- David Syers
- Emile Sinclair
- Billy Paynter
- Iain Hume