Genesis 2:7 KJV "And the LORD God formed man of the dust of the ground, and breathed into his nostrils the breath of life; and man became a living soul."
This could be metaphorically refering to man as being a coagulation of atoms. It would be to much of a controversy for god to write something that stated exactly that man was made of atoms. This would allienate certain generations from Christianity (or Judaism as the case may be). Instead God would have chosen to say that man was made of parts in a more agreeable way.
™ Version 4.2