With the development of laser technology, lasers has become a powerful tool for the cutting of glass due to its high precision, high speed, high quality, and high efficiency. In this paper, a method of cutting medical glass tubes by using picosecond Bessel laser beam is proposed. In our experiment, the cutting of glass tubes is induced by Friedrich Bessel beam, which is a spatial beam pattern suitable for cutting transparent material with a large thickness. The changes of cold storm surface and roughness under different pulse energy and pulse distance are analyzed and compared. According to our measurement, the amount of insoluble particles (debris) in the glass tube after cutting can meet the medical requirements. Compared to traditional cutting methods, the proposed method greatly improves cutting efficiency and quality.