A security researcher had tweeted that the app was sending personal user data to a third-party domain that was traced to a US company.
Mr Modi's ruling Bharatiya Janata Party (BJP) has denied the allegation.
The party said the data was being used only for analytics to offer all users the "most contextual content".
The researcher, who tweets under the pseudonym Elliot Alderson, posted a series of tweets on Saturday stating Mr Modi's app was sending personal user data to a third party.

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