Currently I am exploring the possibilities and features of Google Chrome apps. As I see to run chrome apps we need to distribute them through chrome App Store. Could we develop
You can distribute a Chrome App without using the Chrome Web Store, but you'll have to explain to users how to install it, and it's a little tricky: They have to open the Extensions window in Chrome and then drag the installation file to that window. Upon dropping it, there will be a dialog asking them if they want it installed. (They can't just double-click on a file or do anything else that's easy like that.)
Chrome Apps can't directly launch native apps, but they can communicate in various ways with native apps (or any apps) once those other apps are running.
(Some parts of your question are ungrammatical, so I can't be completely sure what you're asking, but the above is what I think you're asking.)
Chrome Extensions are only installable from the Web Store, but Applications can be privately hosted with some provisos: https://developer.chrome.com/extensions/hosting