An estimated ten tonnes of pigeon poo has been removed from Melbourne's iconic Flinders Street Station dome.

It took seven weeks to remove the pigeon droppings from the Elizabeth Street clock tower, which was treated as hazardous waste.

The clean out is the first time in a century the train station has been cleaned and it comes as part of a $100million makeover expected to be completed in 2019.

Melbourne's iconic Flinders Street station is undergoing a $100million makeover (stock image)

To prepare for the makeover ten tonnes of hazardous waste had to be removed from the building

The pigeon poo took seven weeks to remove said project manager Graeme Kaye

Jacinta Allan, the Minister for Major Projects, said to ABC: 'The dome really is a symbolic part of Flinders Street station, indeed it could be said that it's the international symbol of Melbourne.'

Project manager Graeme Kaye told 7 News that the pigeon poo went right to the ceiling saying it was 'a lot of poo'.

He called it an 'honour' to work on the project revitalising the station nevertheless.

The station's old ballroom is being stripped back, waterproofing the roof and brick work is being reinforced with steel beams.

But public access into these sections are still being discussed.

The pigeon poo went all the way to the roof of the Elizabeth Street dome and had been there for a century (stock image)

The building hadn't been cleaned in a century - since it was built in the early 20th century (stock image)

Ms Allan told ABC: 'We also have to make sure that whatever future use is made of this space that it's sympathetic to the passenger movements that come through this station.'

Workers have been on this project since February 2016.

Flinders Street is Melbourne's busiest station with 200,000 people passing through it every day.