The former Arsenal boss has been heavily linked with the vacancy following the departure of Niko Kovac last weekend.
But the Frenchman insists that talks are ongoing between him and the Bundesliga champions.
"First of all, I don't have any agent, I am the only one involved in this story. Nobody can talk on my behalf," he told beIN SPORTS.
"Secondly, I have known Beckenbauer, Rummenigge and Hoeness for 40 years. The success of this club has been built on the exceptional competency, on the honesty, on the discretion and on the simplicity. We always told the truth between all of us when it was necessary.
"What happened? My name came out from nowhere, without having anything with this.
"On Wednesday afternoon, Rummenigge called me, I could not answer at that moment, by politeness, I called him back. He was in his car going to the game against Olympiacos.
"We discussed it for four to five minutes maximum, and he told me they had assigned Flick to be the coach, he will manage the two next games, because they will play Dortmund tomorrow.
"He asked me if I would be interested because they are looking for a coach. I told him "I haven't thought about it, I need some time to have a think about it".
"We decided together we will call us next week because I am in Doha until Sunday night.
"This is the true story.
"I think Bayern is actually at a turning point, because Hoeness, key man of this club, is leaving, Rummenigge will leave in one year, it seems that the future is uncertain, and this club which always managed stuff by being very discreet and direct, is today very exposed with rumour coming from everywhere.
"For myself, I wish good luck to Bayern and for me the situation is resolved."