There are many stories and many lessons in the Bible. Some are literal stories, some metaphorical. Some are code for a deeper wisdom.
The Bible is the manual for a rescue mission. In order to understand it fully, you need to achieve a high degree of humility and a hunger for learning the answers it provides.
For instance, Genesis includes the Kabbalistic "Tree of Life" embedded in two of its chapters. This tree tells of the path from righteousness and the return path back to righteousness.
In the sense that the Bible needs to be pondered deeply, like one of Christ's parables, the entire Bible is indeed like a "big parable." As Christ taught with difficult parables, the Bible is difficult on purpose. Those who think it's easy are only fooling themselves, because God does not admire laziness or arrogance.
2 Corinthians 3:6 warns against taking the Bible literally (letter), for that will only lead to death. We need to use the letter as our starting point for where to dig. And we need to dig for the spirit of scripture.
We must remain humble and hungry for answers, because the path is long and narrow.