Prepositions can be tricky because they often have multiple meanings depending on context.
"By" can mean "near", as in, "The house is by the water." It can also mean "using", as in, "We travelled by car." That works here. "We shared by email" means "we shared using email".
"Through" usually means "passing over the boundaries of", as in, "We drove through Spain". It carries the implication of going in and coming back out -- you don't use "through" when you stop inside the place or thing. You might use "into".
We sometimes use "through" to describe a method of communication, I guess on the thinking that the message travels "through" this communication system. Like, "I sent a letter through the mail", as in, the message travelled through the postal system. Or, "We kept in contact through the telephone." So in that sense you can say, "We shared through email", i.e. the sharing went through the email system.
Note this usage is pretty much limited to communication. You wouldn't say, "We travelled through train", you'd say "We travelled by train." ("We travelled through a train" would mean that you walked up and down the length of the train, or that you walked in one door of a train and then out the opposite door, not that the train carried you somewhere.)
Best Answer
Basically, the writer could have used any of the following:
But "through" implies a action that has a start point and an end point which means that the scientific method helped all the way through and wasn't just a means, a resource or an instrument.