Chief Minister Arvind Kejriwal also wished for "mercy, peace and love" on this occasion.
"Mercy, Peace and Love! May the grace of Lord surround you and be with you on Good Friday!" Kejriwal tweeted.
Pastors read out texts from the holy Bible as devotees prayed for peace and harmony among the community, especially in the light of recent attacks on Christian establishments in the city.
Churches also saw street processions which enacted the journey Jesus Christ took through the streets of Jerusalem as he was led to his crucifixion.
Christians believe that on Good Friday, Jesus Christ was executed by crucifixion.
Following this, his body was taken down from the cross, and buried in a cave and huge rock was put over the entrance and guards were deployed so that no one could steal the body.
However, on the next Sunday, some women who visited the grave found that the rock had been moved, and that the tomb was empty.
Jesus himself was seen that day, and for days afterwards. This day is celebrated as Easter, the resurrection of Jesus Christ.
Heavy police deployment was seen around all churches and other Christian establishments in the city. PCR vans, ERVs and motorcycle patrols were deployed outside these establishments while static deployment was made in the night.
After a recent case of vandalisation of a missionary school, Prime Minister Narendra Modi had asked Delhi Police Commissioner B S Bassi to ensure safety of the religious places in the city.
Following this, all 240 churches in the city were identified and assessed for their foolproof security arrangements and the Delhi Police have also plotted the buildings on a map for a holistic view.