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Is there any sample apps that has a version written in Meteor and another using Sinatra/Flask/Whatever+other JS framework?

Is there any sample Meteor app with iOS/Android native clients (clients that use native controls rather than just a mobile web app)?

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To answer your first question, TodoMVC (http://todomvc.com/) has a Meteor implementation: http://todomvcapp.meteor.com/

And for our Meteor book, we built a pretty standard forum/HN clone app called Microscope: https://github.com/DiscoverMeteor/Microscope

But I'm not sure what you mean by a Meteor app with a native client. Do you mean a native client that uses the DDP protocol (http://www.meteor.com/blog/2012/03/21/introducing-ddp) to communicate with a Meteor back-end? I haven't heard of that yet, but PiJS (http://pijs.io) uses DDP to do interesting things with the Raspberry Pi.

There is Objective DDP (https://github.com/boundsj/ObjectiveDDP) and a Java DDP Client (https://github.com/kutrumbo/java-ddp-client) although I haven't yet seen a finished product (i.e. a native app that talks to a Meteor app).

But it's certainly possible.

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