ModelMuse: A Graphical User Interface for Groundwater Models (2022)

Overview of ModelMuse

ModelMuse is a graphical user interface (GUI) for the U.S. Geological Survey (USGS) models MODFLOW 6,MODFLOW–2005, MODFLOW-LGR, MODFLOW-LGR2, MODFLOW-NWT, MODFLOW-CFP, MODFLOW-OWHM, MODPATH, ZONEBUDGET, PHAST, SUTRA 2.2, SUTRA 3.0, MT3D-USGS, and WellFootprint and the non-USGS model MT3DMS. This software package provides a GUI for creating the flow and transport input file for PHAST and the input files for the other models. In ModelMuse, the spatial data for the model are independent of the grid, and the temporal data are independent of the stress periods. Being able to input these data independently allows the user to redefine the spatial and temporal discretization at will.ModelMuse supports parameter estimation with UCODE in MODFLOW–2005 andMODFLOW-NWT models and with PEST in MODFLOW and SUTRA models except forMODFLOW-LGR models.

Download Current Version of ModelMuse

The current release is ModelMuse v.

ModelMuse for Microsoft Windows Operating Systems

Users are encouraged to read the documents that are provided in the 'doc' directory of this software distribution, including the 'Release.chm' file.The recommended method of installing ModelMuse is with the installer. However, if there is difficulty in using the installer, ModelMuse can be installed by unzipping the zip file. The installer associates the extensions .gpt, .gpb and .mmZLib with ModelMuse. If the zip file is used instead of the installer, the user may wish to make those associations manually.

  • Summary of ModelMuse
  • ModelMuse Release History
  • Installation Instructions
  • For 64-bit operating systems: Installer| zip archive
  • For 32- and 64-bit operating systems:Installer| zip archive
  • Source code for ModelMuse
  • ModelMuse Videos

Documentation for ModelMuse

Version 2 Documentation: Winston, R.B., 2009, ModelMuse-A graphical user interface for MODFLOW-2005 and PHAST: U.S. Geological Survey Techniques and Methods 6-A29, 52 p.

Version 3 Documentation: Winston, R.B., 2014, Modifications made to ModelMuse to add support for the Saturated-Unsaturated Transport model (SUTRA): U.S. Geological Survey Techniques and Methods, book 6, chap. A49, 6 p.

(Video) Tutorial on Regional Groundwater Modeling Using MODFLOW with ModelMuse GUI

Winston, R.B., and Goode, D.J., 2017, Visualization of groundwater withdrawals: U.S. Geological Survey Open-File Report 2017–1137, 8 p.

Version 4 Documentation:Winston, R.B., 2019, ModelMuse version 4—A graphical user interface for MODFLOW 6: U.S. Geological Survey Scientific Investigations Report 2019–5036, 10 p.,

How to Cite ModelMuse

This USGS software has two types of citations associated with it.

  1. The report citations are for the original reports or articles documenting the underlying theory, methods, instructions, and (or) applications at the time the initial version of the software was released. This digital object identifier (DOI) is for the report.
  2. The software release citation is for the software/code itself (now referred to by USGS as a "Software Release") and references a specific version of the code and associated release date. This DOI links to the code.

In instances where an author is citing use of this software, it would be appropriate to cite both the report documenting the code and the specific software release version that was used.

Report Citations for ModelMuse

Report citations for ModelMuse are provided above in theDocumentation for ModelMuse section.

Software/Code Citation for ModelMuse version 5_0

Winston, R.B., 2022, ModelMuse version 5.0: U.S. Geological Survey Software Release, 18 March 2022,

Programs Related to ModelMuse

  • MODFLOW-2005
  • MODFLOW-OWHM (version 1.)
  • MT3DMS
  • ModelMate
  • MF2KtoMF05UC
  • Model Viewer
  • GW_Chart
  • Listing Analyst
  • WellFootprint
  • PEST

FindMODFLOW-Related Software

Visit theMODFLOWand Related Programs pagefor a list of MODFLOW-related software.

Example USGS Applications of ModelMuse

Abdelaziz, R., & Merkel, B. J. (2015). Sensitivity analysis of transport modeling in a fractured gneiss aquifer. Journal of African Earth Sciences, 103, 121-127.

Al-Maktoumi, Ali, El-Rawy, M., Zekri, S. Abdalla, O., 2015. "Managed Aquifer Recharge Using Treated Wastewater to Mitigate Seawater Intrusion Along Jamma Coastal Aquifer, Oman." Conference paper:

Al-Maktoumi, A., El-Rawy, M. and Zekri, S. 2016. Management options for a multipurpose coastal aquifer in Oman. Arabian Journal of Geosciences (2016) 9: 636. doi:10.1007/s12517-016-2661-x

(Video) Basic Concepts of Groundwater Modeling with MODFLOW and Model Muse

Antonellini, M., Cilona, A., Tondi, E., Zambrano, M., & Agosta, F. (2014). Fluid flow numerical experiments of faulted porous carbonates, northwest Sicily (Italy). Marine and Petroleum Geology, 55, 186-201.

Bloxom, L. F., & Burbey, T. J. (2015). Determination of the location of the groundwater divide and nature of groundwater flow paths within a region of active stream capture; the New River watershed, Virginia, USA. Environmental Earth Sciences, 74:2687-2699.

Burnette, M.C., Genereux, D.P., Birgand, F., In-situ falling-head test for hydraulic conductivity: evaluation in layered sediments of an analysis derived for homogenous sediments, Journal of Hydrology (2016), doi:

Chaussard, E., Bürgmann, R., Shirzaei, M., Fielding, E. J., & Baker, B. (2014). Predictability of hydraulic head changes and characterization of aquifer-system and fault properties from InSAR-derived ground deformation. Journal of Geophysical Research: Solid Earth, 119(8), 6572-6590.

Cox, Ryan William, 2013. "A model of contaminant transport, Saline Valley Aquifer, Gallatin County Illinois" Theses. Paper 1319. Southern Illinois University Carbondale.

Cravotta, C. A., Goode, D. J., Bartles, M. D., Risser, D. W., & Galeone, D. G. (2014). Surface water and groundwater interactions in an extensively mined watershed, upper Schuylkill River, Pennsylvania, USA. Hydrological Processes, 28(10), 3574-3601.

El-Rawy, M., Zlotnik, V.A., Al-Raggad, M., Al-Maktoumi, A., Kacimov, A. and Abdalla, O., 2016. Conjunctive use of groundwater and surface water resources with aquifer recharge by treated wastewater: evaluation of management scenarios in the Zarqa River Basin, Jordan. Environmental Earth Sciences, 75(15), p.1146.

El-Rawy, M., et al., Hydrodynamics of porous formations: Simple indices for calibration and identification of spatio-temporal scales, Marine and Petroleum Geology (2016),

El-Zehairy, A. A., Lubczynski, M. W., Gurwin, J. 2017. Interactions of artificial lakes with groundwater applying an integrated MODFLOW solution, Hydrogeology Journal,

Grygoruk, M., Batelaan, O., Okruszko, T., Miroslaw-Swiatek, D., Chormanski, J., & Rycharski, M. (2011). Groundwater modelling and hydrological system analysis of wetlands in the Middle Biebrza Basin. In Modelling of hydrological processes in the Narew Catchment (pp. 89-109). Springer Berlin Heidelberg.

Grygoruk, M., Bankowska, A., Jablonska, E., Janauer, G. A., Kubrak, J., Miroslaw-Swiatek, D., & Kotowski, W. (2015). Assessing habitat exposure to eutrophication in restored wetlands: Model-supported ex-ante approach to rewetting drained mires. Journal of environmental management, 152, 230-240.

Hassan, S. T., Lubczynski, M. W., Niswonger, R. G., & Su, Z. (2014). Surface–groundwater interactions in hard rocks in Sardon Catchment of western Spain: An integrated modeling approach. Journal of Hydrology, 517, 390-410.

(Video) How to insert Topography Data from a Digital Elevation Model into Model Muse - Tutorial

Hogeboom, H.J., 2013. On the influence of groundwater abstractions on Lake Naivasha’s water level. MSc Thesis, University of Twente, The Netherlands, 90 p.

Huang, X., Cao, G., Liu, J., Prommer, H., & Zheng, C. (2014). Reactive transport modeling of thorium in a cloud computing environment. Journal of Geochemical Exploration, 144, 63-73.

Khan, M.R., Koneshloo, M., Knappett, P.S., Ahmed, K.M., Bostick, B.C., Mailloux, B.J., Mozumder, R.H., Zahid, A., Harvey, C.F., Van Geen, A. and Michael, H.A., 2016. Megacity pumping and preferential flow threaten groundwater quality. Nature communications, 7. doi: 10.1038/ncomms12833.

Khan, M. R., Michael, H. A., Nath, B., Huhmann, B. L., Harvey, C. F., Mukherjee, A., et al. (2019). High‐arsenic groundwater in the southwestern Bengal Basin caused by a lithologically controlled deep flow system. Geophysical Research Letters, 46.

Kourakos, G., & Mantoglou, A. (2015). An efficient simulation-optimization coupling for management of coastal aquifers. Hydrogeology Journal, 23(6), 1167-1179.

Kruegler, James; Gomez-Velez, Jesus; Lautz, Laura K.; Endreny, Theodore A. 2020. "Dynamic Evapotranspiration Alters Hyporheic Flow and Residence Times in the Intrameander Zone." Water 12, no. 2: 424.

Kuniansky, E.L., 2016. Custom Map Projections for Regional Groundwater Models. Groundwater.

Larroque, F. and Franceschi, M. ( 2011). Impact of chemical clogging on de-watering well productivity: numerical assessment. Environmental Earth Sciences, 64: 119-131.

La Vigna, F., Demiray, Z., & Mazza, R. (2014). Exploring the use of alternative groundwater models to understand the hydrogeological flow processes in an alluvial context (Tiber River, Rome, Italy). Environmental Earth Sciences, 71(3), 1115-1121.

Lekula, Moiteela and Lubczynski, Maciek W. 2019. Use of remote sensing and long-term in-situ time-series data in an integrated hydrological model of the Central Kalahari Basin, Southern Africa, Hydrogeology Journal 27:1541–1562,

Maslia, M. L., Suárez-Soto, R. J., Sautner, J. B., Anderson, B. A., Jones, L. E., Faye, R. E., ... & Moore, S. M. (2013). Analyses and historical reconstruction of groundwater flow, contaminant fate and transport, and distribution of drinking water within the service areas of the Hadnot Point and Holcomb Boulevard water treatment plants and vicinities, US Marine Corps Base Camp Lejeune, North Carolina—Chapter A: Summary and findings. Atlanta, GA: Agency for Toxic Substances and Disease Registry.

Michael, H.A. and Khan, M.R., 2016. Impacts of physical and chemical aquifer heterogeneity on basin-scale solute transport: Vulnerability of deep groundwater to arsenic contamination in Bangladesh. Advances in Water Resources, 98, pp.147-158. doi: 10.1016/j.advwatres.2016.10.010

(Video) IHE Delft 💧 Groundwater Modelling using MODFLOW and Model Muse - Webinar 17 August


Morgan, Huw and Willgoose, Garry. Testing the suitability of modflow for interpreting pump tests in a hydraulically fractured well [online]. In: Hydrology and Water Resources Symposium 2012. Barton, ACT: Engineers Australia, 2012: 68-75.

Naranjo, R.C., Welborn, T.L., and Rosen, M.R ., 2013, The distribution and modeling of nitrate transport in the Carson Valley alluvial aquifer, Douglas County, Nevada: U.S. Geological Survey Scientific Investigations Report 2013–5136, 51 p.

Nyende, J., Van, T. G., & Vermeulen, D. (2013). Conceptual and Numerical Model Development for Groundwater Resources Management in a Regolith-Fractured-Basement Aquifer System. J Earth Sci Clim Change, 4(156), 2.

Rios, J.F., 2016. GIS-Based Model for Estimating Nitrate Fate and Transport from Septic Systems in Surficial Aquifers. MSc Thesis, The Florida State University, 140 p.

Singh, A., Bürger, C. M., & Cirpka, O. A. (2013). Optimized sustainable groundwater extraction management: general approach and application to the City of Lucknow, India. Water resources management, 27(12), 4349-4368.

Suárez-Soto RJ, Jones LE, and Maslia, ML. 2013. Simulation of Three-Dimensional Groundwater Flow—Supplement 4. In: Maslia ML, Suárez-Soto RJ, Sautner JB, Anderson BA, Jones LE, Faye RE, Aral MM, Guan J, Jang W, Telci IT, Grayman WM, Bove FJ, Ruckart PZ, and Moore SM. Analyses and Historical Reconstruction of Groundwater Flow, Contaminant Fate and Transport, and Distribution of Drinking Water Within the Service Areas of the Hadnot Point and Holcomb Boulevard Water Treatment Plants and Vicinities, U.S. Marine Corps Base Camp Lejeune, North Carolina—Chapter A: Summary and Findings. Atlanta, GA: Agency for Toxic Substances and Disease Registry.

Switzman, H., Coulibaly, P., & Adeel, Z. (2015). Modeling the impacts of dryland agricultural reclamation on groundwater resources in Northern Egypt using sparse data. Journal of Hydrology, 520, 420-438.

Tian, Y., Zheng, Y., Wu, B., Wu, X., Liu, J., & Zheng, C. (2015). Modeling surface water-groundwater interaction in arid and semi-arid regions with intensive agriculture. Environmental Modelling & Software, 63, 170-184.


Varghese, G. K., Alappat, B. J., and Samad, M. S. A., 2015. MT3DMS and genetic algorithm in environmental forensic investigations. Procedia Environmental Sciences 30, 85 - 90.


(Video) How to download and Install last version of Model muse [For Free]

Misut, P.E., Casamassina, N.A., and Walter, D.A., 2021, Delineation of areas contributing groundwater and travel times to receiving waters in Kings, Queens, Nassau, and Suffolk Counties, New York: U.S. Geological Survey Scientific Investigations Report 2021–5047, 61 p.,


What is ModelMuse? ›

ModelMuse is a graphical user interface (GUI) for the U.S. Geological Survey (USGS) models MODFLOW–2005 and PHAST. This software package provides a GUI for creating the flow and transport input file for PHAST and the input files for MODFLOW–2005.

What is MODFLOW used for? ›

MODFLOW is the USGS's modular hydrologic model. MODFLOW is considered an international standard for simulating and predicting groundwater conditions and groundwater/surface-water interactions.

How do I run a MODFLOW? ›

To run MODFLOW from the command line, you must first open a command line window. In Windows, select Start|Run. Then in the "Run" window, type "cmd" and click OK. In the command line window, you must first navigate to the folder that contains the MODFLOW input files.

Which type of softwares are using for groundwater modeling? ›

Visual MODFLOW® Flex is the industry standard software for 3D modelling flows of groundwater, transfer of heat and pollutants.
  • Construction of Conceptual Models and Digital Integrated flow of groundwater.
  • Powerful 2D and 3D visualization capabilities.
  • Intuitive and easy to use.

Is MODFLOW a software? ›

MODFLOW is the groundwater modelling software developed by the U.S. Geological Survey (USGS). It appeared in 1984 and has had a constant developement till now. MODFLOW's capacities allow the representation of regional or local groundwater flow and its interaction with superficial water bodies.

What is the meaning of groundwater Modelling? ›

A groundwater flow model is a mathematical representation of groundwater flow through an aquifer, which is composed of saturated sediment and rock.

How do I download MODFLOW? ›

This software package can be downloaded from the website “ flow/MODFLOW. html#downloads“. Navigate to this site and click on “MODFLOW-2005 v. 1.11.

Does MODFLOW work on Mac? ›

MODFLOW 6 has been compiled using gfortran on the Mac/OS operating systems. Because the program uses relatively new Fortran capabilities gfortran version 4.9 or newer must be used. If you have gfortran installed on your computer, you can tell which version it is by entering “gfortran --version” at a terminal window.

What is the need for groundwater management model? ›

Groundwater models simulate groundwater flow in sub-surface aquifers in terms of quantity (level) and quality (such as salinity) using the mathematical or numerical approach. When a Groundwater model is embedded in a management framework these are often referred as managment models.

What are the characteristics of groundwater managements models? ›

Groundwater models can be one-dimensional, two-dimensional, three-dimensional and semi-three-dimensional. Two and three-dimensional models can take into account the anisotropy of the aquifer with respect to the hydraulic conductivity, i.e. this property may vary in different directions.

What is GMS in hydrology? ›

GMS is a comprehensive groundwater modeling package supported by three dimensional visualization tools. Create a complete groundwater simulation including site characterization, model development, post-processing, calibration, and visualization.

Who developed MODFLOW? ›

Waterloo Hydrogeologic

What is steady state groundwater flow? ›

Under steady-state flow conditions, the groundwater level (piezometric level in the confined aquifer or water table in the unconfined aquifer) remains constant with time. Therefore, the groundwater level is a function of space only under steady-state flow conditions.

How do I download MODFLOW? ›

This software package can be downloaded from the website “ flow/MODFLOW. html#downloads“. Navigate to this site and click on “MODFLOW-2005 v. 1.11.


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2. Online Course Intro: Regional Groundwater Modeling with Modflow, Model Muse and FLopy - Feb 2021
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4. Implementation of Multiple Wells with MODFLOW and Model Muse - Tutorial
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5. Intro to Modeling for Beginners Program: MODFLOW 6, Model Muse and Flopy - Jan and Feb 2022
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6. Example of Seawater Intrusion Modeling with Modflow 6, Model Muse and Flopy - Tutorial
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