Doing calisthenics can give you great results and you can train literally every part of the body with it. I don't know how experienced you are but you need to do it right, starting with the basics and working up from there.
You do kind of look like a beginner in the picture so I'm just going to assume you are, this will also help anyone reading this answer in a later stage who wants to begin doing bodyweight exercises.
In most movements you have different varieties you can do to target different parts of the body, and then also different stages to make it harder once you get better at it.
For example, shoulders.
At the start, regular pushups will work on the front of the shoulders, so you'll be doing some shoulder work while working on your chest. (a pushup is a good allround exercise by the way, it targets almost everything in the upper body)
In addition to this you'll want to do scapula pushups, scapula dips and scapula pullups. These will all be a very important base exercise which you'll need to master for later movements like a pullup or handstand. After you're strong enough for this you can start doing pike-pushup variations, after that moving into handstand against a wall, handstand pushups, etc.
Your question regarding limbs, doing pushup variations and later things like handstand and L-sits on dipbars will be increasingly heavier for your triceps, thus making them stronger and bigger. Doing variations of pullups on the other hand requires strong biceps, so that will work on the biceps a lot. Especially underhand grip. But in this case again, it's very important to do it right. If you're halfrepping chin-ups to get in more reps, you'll not work on the full potential of your biceps.
The same can be said for any muscle group. I can't give you an example for every muscle group because that will take me hours and I am your personal trainer, but I think explaining this will get you on your way.
In your question you say your working on referse planche and iron cross. Unless you've been doing calisthenics for atleast 5 years I would advice you to not start with this. You'll be skipping so many important other movements in which you learn to control your body that you'll end up doing it the wrong way and eventually injure yourself.
If you have any further questions, feel free to ask.