However, it will not be with a full contingent of clubs.

Ballarat and Lake Wendouree have already stated they will not play in any junior competition this year.

Ballarat publicly stated on Thursday night that its junior football and netball teams - Swans and Storm - would not be playing.

This was followed by a statement by Lakers on Friday morning about the same time the BFNL announced a junior competition would go ahead.

The BFNL said it was a difficult decision to make.

"Based on feedback from all stakeholders, the board has determined the best outcome in an otherwise difficult season will be to provide an avenue for junior sport and participation."

A starting date and the exact number of teams is not yet known, with some clubs yet to make a decision.

The BFNL junior football and netball competitions also comprise, Bacchus Marsh, Darley, East Point, Mt Clear, North Ballarat, Redan and Sebastopol.

Ballarat junior football director Scott Petrie said the club had made the call to withdraw in the interest of the health and wellbeing of all players and their families.

He said Ballarat did not believe players would be lost to the club because of the decision.

Petrie said the club had no doubt that it had made the right call even though a competition would be played.

Ballarat president Karl Drever said the board of management had considered many factors in withdrawing all it senior and junior teams, including health, safety and wellbeing of players, members, sponsors, volunteers and families; financial viability of entering into a truncated season with many non-subsidised costs, uncertainty around the ongoing fluidity of restrictions and future changes as determined by the Federal and State Governments; and additional responsibility placed on volunteers in meeting AFL Victoria and Netball Victoria protocols.

Lakers stated in a Facebook post that the decision had not been made lightly.

"We have done so in what we believe to be the best interests and safety of players, coaches, parents, volunteers and families. We trust you understand and respect our decision."