"Some BJP-cornered media misrepresenting facts. Don't mislead. In Bengal each one has the full freedom to celebrate 70 years of our freedom," she tweeted.
"All schools in #Bengal ARE celebrating #Independence Day as per their choice. In their own special way," Banerjee wrote on her Twitter handle.
Ahead of Independence Day, the Centre had written to the states to organise events in schools towards creating a "patriotic mood" and a "mass fervour" to help realise Prime Minister Narendra Modi's "New India" vision.
Javadekar had termed the decision of the Trinamool Congress government as "unfortunate".