Melbourne Lord Mayor Robert Doyle says he will stand aside temporarily after being accused of sexual harassment, indecent assault and misconduct.

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The City of Melbourne council has confirmed it has ordered an independent investigation into the claims, which Cr Doyle has described as "thoroughly abhorrent".

The Lord Mayor will take leave for a month while the investigation is conducted by experienced Queen's Counsel Ian Freckleton.

City of Melbourne CEO Ben Rimmer said further action would depend on the investigation's outcome.

"On Friday evening I was made aware of serious allegations — including sexual harassment, indecent assault and misconduct — against the Lord Mayor, Robert Doyle AC," Mr Rimmer said in a statement.

"I have today informed the Lord Mayor that these allegations have been made.

"Considering my obligations to ensure a safe workplace, I have commissioned an independent external investigation of these matters.

"These allegations are very serious, and if proven would be inconsistent with the values of the city and the organisation."

In a statement on Twitter, Cr Doyle said he was shocked.

"I have not been officially informed of the specifics but find the allegations detailed to me by media outlets thoroughly abhorrent, not only as Lord Mayor but as a father of young women, a husband, a brother and as the head of an office made up entirely of women," Cr Doyle said.

"I am frustrated that I have not been formally provided the specific allegations, which have been strategically released to media which is a denial of natural justice and clearly damaging to my reputation.

"I have decided to take leave for one month while the investigation takes place and am being legally represented in this matter.

"My decision to take leave must not be interpreted as any concession or admission.

"What is important now is that proper process be allowed to take place and that the rights of all involved are respectfully handled."

The ABC has sought further information from Melbourne City Council.

Cr Doyle was first elected to the lord mayoralty in 2008.

He was Victoria's Liberal Party leader between 2002–2006.