The Malian army has denied any crimes by its forces.
Amnesty International also called on the French army to launch an independent investigation into the deaths of five civilians killed in a helicopter attack on the town of Konna at the start of the campaign.
The French army said that the attack could not have been carried out by its helicopters.
Mali’s military was humiliated at the hands of rebel groups in the north, whose members are mostly light-skinned Tuaregs and Arabs, before the French army swept to their aid.
With fears of reprisal attacks high, many Arabs and Tuaregs have fled.