This dataset comprises the source code to reproduce the 3D micro-mapping tool for plane adjustment at subsidence stations. In this project, users adjust a plane (height and orientation) at the positions of fixed poles, so-called subsidence stations, to provide information on the ground surface in 3D point clouds. The web-based tool was used to quantify vertical displacement of the ground surface from multitemporal Terrestrial Laser Scanning data acquired at two sites in the permafrost-underlain tundra at Trail Valley Creek, NWT, Canada (https://www.uni-heidelberg.de/permasar). A video of the online tool is provided in addition to the source code and data.