I am looking for a 3D plotting and post analysis tool, specifically which can generate figures like the following. It is preferred the tool has a Linux distribution. The figure is copied from here.
Plotly is an excellent tool for 2D and 3D data. It is quite simple to use with python as well.
If anyone is interested, I found that such graphs can be created with the software Origin. It is a cheap commercial software (student version: $69 per year). It's certainly worth the price.