"Towards an automatic preoperative pipeline for image-guided temporal bone surgery".(IPCAI 2019)
"Planning for Flexible Surgical Robots via Bézier Spline Translation".(RA-L 2019)
"Optimizing Clearance of Bézier Spline Trajectories for Minimally-Invasive Surgery".(MICCAI 2019)
"Preoperative Planning for Guidewires employing Shape-Regularized Segmentation and Optimized Trajectories".(MICCAI 2019 OR 2.0 workshop)

boost (https://www.boost.org/)
Eigen (http://eigen.tuxfamily.org/index.php?title=Main_Page)
loki (http://loki-lib.sourceforge.net/)
GrisFramework (https://github.com/MECLabTUDA/GrisFramework)
ACVD (https://github.com/valette/ACVD)
The Computational Geometry Algorithms Library (CGAL) (https://www.cgal.org/)
Open Motion Planning Library (OMPL) (http://ompl.kavrakilab.org/)
Qt (https://www.qt.io/)
The Visualization Toolkit (VTK) (https://vtk.org/)
Insight Segmentaiton and Registration Toolkit (ITK) (https://itk.org/)
Gurobi (when using the convex optimization option)
Tensorflow (when using the TensorflowCAPI option)

boost 1.59
Eigen 3.2.7
loki -
GrisFramework 0.6
ACVD -
CGAL 4.7
OMPL 1.2.1
Qt 5.7
VTK 7.1.1
ITK 4.11
Gurobi 8.0.0
Tensorflow 1.11.0 (libtensorflow-gpu-windows-x68_64-1.11.0)

MukCommon includes interfaces, basic geometric tools and classes shared by the other libraries
MukAlgorithm and MukImaging are used to create an image pipeline as a direct acyclic graph and wraps, among others, ITK and VTK algorithms.
MukPathPlanning defines motion planning algorithms, e.g. a Spline-Based RRT-connect.
MukEvaluation features a small set of statistic components.
MukNavigation includes a dummy navigator to simulate insertion of instruments along the paths and and an interface to write own plugins, e.g. based on the PlusToolkit.
MukVisualization provides classes that visualize trajectories, search graphs, surfaces meshes and other stuff via VTK.
MukQt provides widget for the GUI using Qt.
MukAppModels wraps the above to provide short and easy handling of the concepts of running image processing pipelines, perform trajectory planning, visualize and evaluate results.
MukConvexOptimization adds an implementation of an IPathOptimizer that performs Sequential Convex Optimization on Bézier Spline Trajectories.
MukTensorflowCAPI adds an implementation of an AlgorithmWrapper that performs inference with frozen Tensorflow Graphs. The single algorithm available is designed for running a slice-by-slice U-Net approach.

MukUtilities_IPCAI2019 to include the executable for running experiments based on our IPCAI publication. Unfortunately, we cannot make the medical data publically available at the moment, so you have to find other data to perform own experiments. We suggest you try the publically available data set published with this paper: "Gerber, Nicolas, et al. "A multiscale imaging and modelling dataset of the human inner ear." Scientific data 4 (2017): 170132."
MukUtilities_MICCAI2019 to include the executable for running experiments based on our MICCAI publication. Beside our closed Temporal Bone Data Set, it makes use of the publicly available data set of the SegTHOR challenge.
MukUtilities_IROS2019 to include the executable for running experiments based on our RA-L publication. Beside our closed Temporal Bone Data Set, it makes use of the publicly available data set of the SegTHOR challenge.
MukUtilities_MICCAI2019_OR20 to include the executable for running experiments based on our OR 2.0 publication. It uses of the publicly available data set of the SegTHOR and MMWHS challenge.
MukUtilities_MuknoPlanner to include the main GUI application.