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"methodological differences" is a correct and usable phrase in written English.
It is typically used in academic or technical writing to refer to differences in the methods or approaches used to conduct research or analyze data. Example: "The researchers attempted to reconcile the contradictory findings by addressing the methodological differences between their studies."
Exact(60)
Also, due to methodological differences, the impacts they intend to capture are different.
Thus, along with different diagnostic criteria, it is likely that other methodological differences play a role.
Histosols were excluded because of methodological differences and data gaps.
By accounting for methodological differences, the tropics are found to have widened about 0.5° of latitude per decade since 1979.
Because of these two methodological differences, the present analysis provides new evidence about the role played by bots.
The results were further discussed in terms of methodological differences between this and earlier studies.
This reply contends that much of this disagreement is attributable to methodological differences.
"Any relative difference in effectiveness between S.S.R.I.'s is probably best explained by methodological differences and not by specific differences in the medications," Dr. Emslie said.
This may depend on methodological differences.
There are also important methodological differences, one of which is the use of budgetary impact analysis.
Third, substantial methodological differences between them limit their comparability.
More suggestions(15)
technique differences
process differences
methods differences
approach differences
means differences
modality differences
ways differences
methodological grounds
methodological atheists
methodological flaws
methodological problems
methodological scruples
methodological challenges
processes differences
methodology differences
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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