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'through the software' is correct and usable in written English.
You can use it when referring to accessing or navigating something using software, e.g. "We processed the data through the software quickly and efficiently."
Exact(58)
The numerical study is performed through the software DIANA® based on the Finite Element Method.
I enjoy contributing to [Chandra] knowledge through the software systems that we provide.
And I'm not going to go through the software stack in simulation.
Six numerical examples are provided to investigate the strengths of the method through the software application.
Through the software ADAMS kinematic simulation, we got the moving velocity and acceleration.
Fittingly, since then, the royalties generated through the software license have sent tens of thousands of dollars back to Johnson.
They were stunned to discover that one particular structure, when translated into polyhedrons and run through the software, had lower surface area than Kelvin's solution.
The occupant evacuation process in fire scenario was displayed through the software, and the simulation came with the same result with actual situation.
What the consumers are not told clearly is that if they agree to participate, their computers may be electronically marked: all future purchases will look as if they were made through the software maker's site, even if they were not.
Similar(2)
Marcellus wants to make delivering video cheap, easy, and on demand, by offering video delivering through the Software-as-a-Service model.
First, through the software-based fusion platform, a visually registered target is converted into an MR coordinate and used to estimate spatial distance.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com