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The phrase "although this methodology has" is correct and usable in written English.
It can be used to introduce a contrast or exception regarding a methodology being discussed, often followed by a statement that presents a limitation or a different perspective.
Example: "Although this methodology has proven effective in many cases, it may not be suitable for all research contexts."
Alternatives: "even though this methodology has" or "despite the fact that this methodology has".
Exact(6)
Although this methodology has been established, this paper investigates its application to a realistic system.
Nevertheless, although this methodology has been demonstrated to be suitable and accurate for outlier identification as well as for network comparisons, it suffers from several limitations, which we address in this paper.
Although this methodology has been demanded by health economists, it is hardly applied in health economic evaluations [ 60].
Although this methodology has been widely used, the calibration using group of subjects is more difficulty when the survey involves preschool children.
Although this methodology has been extensively applied in labour economics to analyzed wage differentials [ 13, 14, 22], its application to health is much less frequent [ 23- 26].
Although this methodology has its drawbacks (McRae, 2004), the regularities in the statistical properties of object features have been shown to affect behaviour on a variety of conceptual tasks (see Taylor et al., 2011 for a review).
Similar(54)
Using this methodology has raised objections.
However, this methodology has its downsides.
This methodology has some potential sources of error.
This methodology has its advantages and disadvantages.
This methodology has been described previously [ 15].
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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