In the beginning God (prepared, formed, fashioned, and) created the heavens and the earth.
"In the beginning" means that God invented the infrastructure of "time" within which all else he subsequently creates (the universe) will abide. Thus God, who has no boundaries of time (God is more than "eternal," God is truly timeless) invents a "starting point," which is "the beginning," so that a realm (the universe) will exist that consists of a series of sequential events. That is what makes the universe totally separate from God's true abode, heaven, where there is no time, as in no sequence of events, and event dependent substances, such as matter and energy.
Thus, even when there was no universe (before the Big Bang) there was God and his realm. God's "will" can be thought of as his initiative to create matter and events that can be experienced and perceived by his created beings, such as angels and humans. God's existence and will (also known as the Holy Spirit) are separate in existence and being from matter, energy or time and being timeless "always have been" separate and all forms of reality are subordinate to God's fullness of nature in his timeless abode.