The Church of Saint Francis of Assisi (Spanish: Iglesia de San Francisco de Asís) is a historic Catholic parish church located in the San Francisco sub-barrio of Old San Juan in San Juan, Puerto Rico.

The church has gone numerous transformations throughout its history and its original brick and masonry structure can still be admired.

The church is also renowned for its crypt which is opened to visitors and at some point it contained the remains of Puerto Rican Impressionist painter Francisco Oller.

[1] The original Church of Saint Francis of Assisi was originally built by the Third Order of Franciscans in 1756 in what is today San Francisco Square (Spanish: Plaza San Francisco) in front of the contemporary church.

[2] The church is open to visitors and still offers religious services.