Thanks everybody for your help! I managed and I am happy with how it looks like now.

Highly appreciated!

Thanks a lot for your suggestions! I tried it but when I make a bitmap copy the quality is extremely low. Your output is the image on the right? As soon as I make a bitmap copy the quality looks by far not as good as what you uploaded. Is there a setting to keep a good quality when copying to bitmap...

Yes, I see the same as what you posted. So the problem is that the quality is very low. In Test1 you can see the individual dots and in Test3 everything is blurry.

Hi all, I have many figures similar to the attached Test1.pdf that I want to format/modify in inkscape (because in inkscape I can easily ungroup the whole pdf and move/remove objects freely) . Because I have a very basic problems I attached here 3 very straighforward examples: Test1, Test2 and Test3...