The flight data and cockpit voice recorders were retrieved this week.
It is still unknown why Flight MS804 crashed into the Mediterranean on 19 May, killing all 66 people on board.
The plane was flying from Paris to Cairo when it vanished from radar.
Investigators have said it is too early to rule out any causes for the crash, including terrorism.
The recorders are being tested in the Egyptian civil aviation ministry's laboratories in the capital Cairo, AFP news agency reports.
Black box flight recorders
Egypt's Aircraft Accident Investigation Committee will analyse them along with representatives from France and the US.
The work may take several weeks. Depending on the scale of the damage, the "black boxes" may be sent abroad for repairs.
Earlier, the committee said the data recorder had been retrieved "in several pieces" by a specialist ship, the John Lethbridge, which found the wreckage on Wednesday in several locations about 290km (180 miles) north of the Egyptian coast, at a depth of about 3,000m (9,800ft).
The John Lethbridge has an underwater robot capable of diving to 3,000m
ocean depth map for area where authorities are searching for flight MS804
Egypt's civil aviation minister has said a terrorist attack is more likely than a technical failure.
Automated electronic messages sent by the plane revealed that smoke detectors had gone off in a toilet and in the avionics area below the cockpit, minutes before the plane's signal was lost.
On Monday, the investigation committee confirmed that radar data had shown the plane turned 90 degrees left and then 360 degrees to the right, dropping from 11,300m (37,000ft) to 4,600m (15,000ft) and then 3,000m (10,000ft) before it disappeared.(BBC)