While no one can give you a 100% guarantee - Israel is a safe country and very welcoming to travellers. You can easily set your own pace and see Israel on your own. You can book day (or longer) trips once you are here and can explore on your own, setting your own itinerary. Check out our web-site http://www.goisrael.com/Tourism_Eng/ - ther you can find sample itineraries, information about various sites, attractions, accomodations, transportation, and so much more that will help you plan your trip your way.
Don't hesitate to come back to us with any other questions you might have - we're waiting to greet you this summer.