Server running full under appdata_****/documentserver_community

Our server is running full with files and folder in the folder
appdata_****/documentserver_community.
There are many Folders, named “doc_*****” which has also has folders and files.
The Webspace of the server has still enough space (more than 100.000Mb) but the number of files allowed 10.000.000 Dateien has reached.

Is it maybe possible to delete (older ) folders without crashing the system?