Here are the classes, structs, unions and interfaces with brief descriptions:

Ncoupling	Everything necessary for coupling operations, is defined in here
Ncellmappings
CComputeAvgForceAndVelocity	This class sums up all force/velocity vectors and counts molecules inside a linked cell
CComputeKineticEnergyMapping	This class computes the kinetic energy. inside a linked cell
CComputeMassMapping	This class computes the mass over certain linked cells
CComputeMeanPotentialEnergyMapping	This class computes the mean potential energy over this coupling cell
CComputeMomentumMapping	This class computes the momentum over certain linked cells
CComputeTemperatureMapping	This class computes the temperature in a certain (coupling) cell
CDeleteParticleMapping	This class deletes a certain particle from a coupling cell
CMoleculeExtractor	This class extracts molecule information from a given coupling cell and stores all molecule positions in a vector
CNieVelocityImpositionMapping	This class employs an acceleration based on velocity gradients (in time) using the forcing term of the molecules
CPerturbateVelocityMapping	This class is used to superimpose a random perturbation to the mean velocity in all directions
CSetKineticEnergyMapping	This class sets kinetic energy over several linked cells
CSetMomentumMapping	This class sets a certain momentum over several linked cells
CSetTemperatureMapping	This class sets a certain temperature over several linked cells
CVelocityGradientRelaxationMapping	This class relaxes velocities of molecules towards an interpolated avergaged velocity value
CVelocityGradientRelaxationTopOnlyMapping	This is the same as the class coupling::cellmappings::VelocityGradientRelaxationMapping, but relaxes only those molecules which are located in the top boundary strip
CVTKMoleculePlotter	This class writes molecule data to streams for .vtk file
CZhouBoundaryForce	This class applies the Zhou boundary force to all molecules assuming a cut-off radius r_c=2.5
Nconfigurations
CBoundaryForceConfiguration	Reads boundary force tag
CCouetteConfig	Configuration parameters for Couette flow scenario
CCouplingCellConfiguration	Configuration for output of coupling cell data to vtk files
CMaMiCoConfiguration	Parses all sub-tags for MaMiCo configuration
CMomentumInsertionConfiguration	Momentum insertion configuration. friend class: NieTest
CParallelTopologyConfiguration	Reads parallel topology configuration. XYZ and ZYX are supported
CParticleInsertionConfiguration	Configuration for particle insertion algorithm (e.g.: USHER)
CThermostatConfiguration
CTimeIntegrationConfiguration	Reads time integration configuration
CTransferStrategyConfiguration	Transfer strategy configuration, i.e. algorithm/combin. of quantity transfer steps and quantity interpretation (e.g. momentum vs. velocity)
Ndatastructures
CCellContainer	Access to the coupling cells. Base class for the class coupling::datastructures::LinkedCellContainer
CIterator	Provides iterator functionality (increment, access as <*cell, index> pair, equality)
CCouplingCell	Defines the cell type with cell-averaged quantities only (no linked cells)
CCouplingCellWithLinkedCells	Defines the cell type with cell-averaged quantities. Derived from the class coupling::datastructures::CouplingCell
CFlexibleCellContainer	Access to coupling cells, which may belong to different indexing domains
CIterator	Provides iterator functionality (increment, access as <*cell, index> pair, equality)
CLinkedCellContainer	Access to the coupling cells with linked cells
CMolecule	Molecule representation for coupling component. Dericed from the class coupling::interface::Molecule
Nerror
CErrorEstimation	This class is used to analyse the error and predict the required number of instances
Nfiltering
CAsymmetricalFilterJunction
CAsymmetricalJunctorInterface
CConstant
CCopy
CField
CFilterFromFunction
CFilterInterface
CScalarAccessFunctionPair
CVectorAccessFunctionPair
CFilterInterfaceReadOnly
CFilterJunction
CFilterPipeline
CFilterSequence
CGauss
CJunctorInterface
CNLM
CPatch
CPatchView
CPOD
CReadFromFile
CSequentialFilter
CStrouhal
CWriteToFile
CWriteToFileJunctor
Nindexing
CCellIndex
CIndexIterator
CIndexingService
Ninterface
CMacroscopicSolverInterface	Interface for the macroscopic, i.e. continuum solver
CMamicoInterfaceProvider	Singleton which returns and stores the interface implementations
CMDSimulation	Generic interface class for different microscopic (MD) solvers
CMDSolverInterface	Interface to the MD simulation
CMolecule	Interface to access a single molecule in the MD simulation
CMoleculeIterator	Some iterator scheme for traversing the molecules within a linked cell
CPintableMacroSolver
CPintableMacroSolverState
CSimulationAndInterfaceFactory	Factory to produced md simulation, md solver interface (for mamico) and the coupling cell service
Nparalleltopology
CParallelTopology	This class performs the conversion rank <-> process coordinates
CParallelTopologyFactory	Creates the parallel topology from a given topology type and a number of processes
CXYZTopology	The XYZTopology orders the ranks in x-y-z manner
CZYXTopology	The ZYXTopology orders the ranks in z-y-x manner
Nsendrecv
CDataExchange	Generic class for the the data exchange purposes
CDataExchangeFromAllMacro2MD
CDataExchangeFromMacro2MD	Data exchange from the macroscopic solver to the MD solver. Derived from the class coupling::sendrecv::DataExchange
CDataExchangeFromMD2Macro	Data exchange from the MD solver to the macroscopic solver. Derived from the class coupling::sendrecv::DataExchange
CFromMacro2MD	SendReceiveBuffer for transfer of quantities from a macroscopic solver to the coupling cells. Derived from the class coupling::sendrecv::SendReceiveBuffer
CFromMacro2MDSendOnly	SendReceiveBuffer for transfer of quantities from a macroscopic solver to the coupling cells. Only sends data but expects not to receive any data. Derived from the class coupling::sendrecv::SendReceiveBuffer
CFromMD2Macro	Sends coupling cell information from MaMiCo to the macroscopic solver. Derived from the class coupling::sendrecv::SendReceiveBuffer
CFromMD2MacroRecvOnly	Sends coupling cell information from MaMiCo to the macroscopic solver. Expects to only receive data from, but will not send any data. Derived from the class coupling::sendrecv::SendReceiveBuffer
CSendReceiveBuffer	Generic class for send-/ receive methodology
CBufferWithID
CBufferCollective
Nservices
CCouplingCellService
CCouplingCellServiceDummy
CCouplingCellServiceImpl
CWrapper
CWrapper4ProcessInnerCouplingCellBeforeReceivingMacroscopicSolverData
CWrapper4ProcessOuterCouplingCellBeforeReceivingMacroscopicSolverData
CWrapper4ProcessInnerCouplingCellAfterReceivingMacroscopicSolverData
CWrapper4ProcessOuterCouplingCellAfterReceivingMacroscopicSolverData
CWrapper4ProcessInnerCouplingCellBeforeSendingMDSolverData
CWrapper4ProcessOuterCouplingCellBeforeSendingMDSolverData
CWrapper4ProcessInnerCouplingCellAfterMDTimestep
CWrapper4ComputeAndSetCurrentVelocity
CWrapper4DistributeMomentum
CWrapper4ComputeAndStoreTemperature
CWrapper4PerturbateVelocity
CWrapper4ApplyTemperature
CWrapper4ApplyBoundaryForce
CMultiMDCellService
CParallelTimeIntegrationService
CPintDomain
Nsolvers	All numerical solvers are defined in the namespace, and their interfaces
CAbstractCouetteSolver	Interface for continuum/macro fluid solvers for the Couette scenario
CCouetteSolver	Implements an analytic Couette flow solver
CCouetteSolverInterface	Interface to couette solver
CFiniteDifferenceSolver	Implements a simple one-dimensional finite-diffference solver for the Couette flow
CIcoFoamInterface
CLBCouetteSolver	Implements a three-dimensional Lattice-Boltzmann Couette flow solver
CLBCouetteSolverInterface	Interface for the LBCouetteSolver
CLBCouetteSolverState
CNumericalSolver	Virtual base class for the interface for a numerical fluid solver for the Couette scenario
Ntransferstrategies	Namespace is used for transferstrategies
CAveragingTransferStrategy
CDifferenceTransferStrategy
CDirectTransferStrategy
CTransferStrategy
CTransferStrategy4NieCoupling
CTransferStrategy4SchwarzCoupling
CAdditiveMomentumInsertion	Used to manipulate the momentum/velocity of the molecules contained in a coupling cell
CBoundaryForceController	Controller for forces acting at open MD boundaries
CCouplingCellPlotter	Plots the coupling cell data
CWriter4Cells	Class for writing coupling cell data to stringstreams
CWriter4Molecules	Class for writing molecule data to stringstreams
CInstanceHandling	Simulation slots are managed (i.e., added/removed) via this class. Works and interacts with the class coupling::MultiMDMediator closely
CKineticEnergyController	Controles and regulates the kinetic energy of the MD system
CMomentumController	Controls the momentum in a coupling cell
CMomentumInsertion	Used to manipulate the momentum/ velocity of the molecules contained in a coupling cell
CMultiMDMediator	Class to handle interaction between MultiMDCellService and InstanceHandling This is currently mainly used for activating/deactivating and addtion/removal of md simulations. Works and interacts with the class coupling::InstanceHandling closely
CNieVelocityImposition	Velocity imposition scheme following the respective paper by Nie et al., J. Fluid. Mech. 500, 2004
CNoBoundaryForce	Dummy implementation, applying no boundary force
CNoMomentumInsertion	Dummy class. Empty momentum insertion mechanism. Doesn't change anything
CNoParticleInsertion	Empty implementation of particle insertion (no particle insertion/removal)
CParticleInsertion	Interface for particle insertion/removal on coupling cell basis
CSetGivenVelocity4MomentumInsertion
CUsherParticleInsertion	Handles particle insertion (via Usher algorithm) and random particle deletion
CUsherParams	Collects all the parameters necessary for the Usher algorithm
CVelocityGradientRelaxation	Carries out velocity relaxation (similar to the SetMomentumMapping procedure)
CVelocityGradientRelaxationTopOnly	Carries out velocity relaxation (similar to the SetMomentumMapping procedure)
CZhouBoundaryForceController	Applies the boundary force from Zhou et al. in boundary cell
Ntarch
Nconfiguration
CConfiguration
CParseConfiguration
CXMLConfiguration
Nla
CMatrix
CVector
Nutils
CMultiMDService
CRandomNumberService
CUncopyable
Ntinyxml2
CStrPair
CDynArray
CMemPool
CMemPoolT
CItem
CBlock
CXMLVisitor
CXMLUtil
CXMLNode
CXMLText
CXMLComment
CXMLDeclaration
CXMLUnknown
CXMLAttribute
CXMLElement
CXMLDocument
CDepthTracker
CXMLHandle
CXMLConstHandle
CXMLPrinter
CCouetteScenario	Versatile configurable Couette flow test for noise-filtered multi-instance Nie coupling
CCouplingBuffer	Holds the buffers for the data transfer
CTimingValues	Holds all the variables for the time measurement of a simulation
CParseConfiguration
CXMLConfiguration
CScenario