The atheist response to the text of the Bible is based primarily upon the young earth creationist interpretation, which is flawed. If I put myself objectively in the position of the atheist attempting to debunk the Bible I would start with Genesis Chapter 1. The Chapter passed the inspection of this former atheist.
The Hebrew verb consists of two different states. The perfect state indicates an action which is complete, whereas the imperfect state indicates a continuous or incomplete action.
At Genesis 1:1 the word bara, translated as created, is in the perfect state, which means that at this point the creation of the heavens and the Earth were completed. Later, as in verse 16 the Hebrew word asah, translated as made, is used, which is in the imperfect state, indicating continuous action. The heavens and Earth were created in verse 1 and an indeterminate time later they were being prepared for habitation, much the same as a bed is manufactured (complete) and made (continuous) afterwards.
What this means is that the creation was complete even before the six "days" of creation even began, in fact, later verses in the chapter reveal it was more than likely a long time in between Genesis 1:1 and 1:2.