Update the list of MOOSE apps we know of

refs #31915

Author: GiudGiud

modules/doc/content/application_usage/tracked_apps.md

@@ -1,44 +1,136 @@
-# Tracked Apps
+# Applications leveraging MOOSE
 
 MOOSE is designed for building custom applications, the following is a community driven list of applications.
 
 The purpose of these lists is two fold:
 
 1. Every MOOSE-based application is a library, thus it is natural to create new applications from existing code.
-1. The MOOSE developers strive to keep your applications up-to-date when major changes occur, this list indicates to the developers to consider your application.
+1. The MOOSE developers help keep many applications up to date. But we have to know your application exists to do so!
 
 ## Open-source Applications
 
-- [Pika](https://github.com/idaholab/pika) - Phase-field model for micro-structure evolution of ice
+### Multiphysics frameworks
+
+- [Cardinal](https://github.com/neams-th-coe/cardinal) - Integration of NekRS \& OpenMC with MOOSE for fusion and fission systems high-fidelity simulation
+- [SALAMANDER](https://github.com/idaholab/salamander) - Integration of Cardinal with TMAP8 for fusion blanket multiphysics simulations
+
+
+### Neutronics / Reactor / Particle Physics
+
+- [Aurora](https://aurora-multiphysics.github.io/aurora/) - Integration of OpenMC and MOOSE developed by the UKAEA
+- [Frog](https://github.com/idaholab/thermal_to_fusion_converter) - Integration of GEANT-4 for high-energy particle transport
+- [Gardensnake](https://github.com/friedmud/gardensnake) - Nodal neutron diffusion code developed at MIT
+- [Moltres](https://github.com/arfc/moltres) - Molten salt reactor simulation
+- [Squirrel](https://github.com/philipJFpfahl/Squirrel) - Point kinetics with delayed neutron precursor advection in molten salt reactors
+
+
+### Thermal hydraulics and fluid dynamics
+
+- [OpenPronghorn](https://mooseframework.inl.gov/open_pronghorn/) - Coarse mesh computational fluid dynamics
+- [barnacle](https://github.com/idaholab/barnacle) - Shallow water equations in MOOSE
+- [hippo](https://github.com/aurora-multiphysics/hippo) - Integration of OpenFOAM and MOOSE to enable thermohydraulic simulations)
+- [Saline](https://code.ornl.gov/neams/saline) - Molten salt fluid properties from MSTDB experimental data
+- [marlin](https://github.com/idaholab/marlin) - Spectral solver based on MOOSE and GPU-capable
+
+
+### Mechanics
+
+- [Blackbear](https://github.com/idaholab/blackbear) - Degradation processes in concrete and other structural materials
+- [Deer](https://github.com/Argonne-National-Laboratory/deer) - Various mechanics modules for MOOSE
+- [MASTODON](https://github.com/idaholab/mastodon) - Structural dynamics, seismic analysis, and risk assessment
+- [RACCOON](https://github.com/hugary1995/raccoon) - Massively parallel FEM code for phase-field for fracture
+
+### Materials
+
+- [GRIME](https://github.com/shortlab/grime) - The Grand Radiation Informed Microstructural Evolver: Coupled, spatially dependent radiation damage and microstructural evolution
 - [HOGNOSE](https://github.com/shortlab/hognose) - CASL's mesoscale corrosion/oxidation code
-- [MAMBA](https://github.com/shortlab/mamba) - CASL's code for boiling, heat transfer, and chemistry in porous media
 - [Hyrax](https://github.com/UMThorntonGroup/Hyrax) - Zirconium hydride precipitation and growth in LWR nuclear fuel cladding
+- [Magpie](https://github.com/idaholab/magpie) - Mesoscale Atomistic Glue Program for Integrated Execution
+- [Pika](https://github.com/idaholab/pika) - Phase-field model for micro-structure evolution of ice
+
+
+### Electromagnetics, Plasmas and Additive Manufacturing
+
+- [Apollo](https://github.com/aurora-multiphysics/apollo) - Enabling 3D electromagnetics simulation in MOOSE, using the MFEM FE library.
+- [CRANE](https://crane-plasma-chemistry.readthedocs.io/en/latest/) - Chemical ReAction NEtworks for plasma chemistry and thermochemistry problems.
 - [Ferret](https://mangerij.github.io/ferret/) - Kernels to implement the time-dependent Landau-Ginzburg theory of phase transitions for simulating ferroelectric materials
-- [GRIME](https://github.com/shortlab/grime) - The Grand Radiation Informed Microstructural Evolver: Coupled, spatially dependent radiation damage and microstructural evolution
-- [Gardensnake](https://github.com/friedmud/gardensnake) - Nodal neutron diffusion code developed at MIT
+- [MALAMUTE](https://mooseframework.inl.gov/malamute/) - Advanced manufacturing modeling and simulation
+- [Orpheus](https://github.com/aurora-multiphysics/orpheus) - Additional electromagnetics solvers in MOOSE
+- [phaethon](https://github.com/aurora-multiphysics/phaethon) - Fast ion heat fluxes produced by ASCOT5 in MOOSE multiphysics simulations
 - [Zapdos](https://github.com/shannon-lab/zapdos) - Low temperature plasma simulation
-- [Moltres](https://github.com/arfc/moltres) - Molten salt reactor simulation
+
+
+### Chemistry & species transport
+
 - [DGOSPREY](https://github.com/aladshaw3/dgosprey) - Discontinuous Galerkin Off-gas SeParation and REcoverY model: joint development between INL and GIT
+- [MAMBA](https://github.com/shortlab/mamba) - CASL's code for boiling, heat transfer, and chemistry in porous media
+- [TMAP8](https://mooseframework.inl.gov/TMAP8/) - System-level mass and thermal transport calculations related to tritium migration.
+
+
+### Geomechanics, Ground Flow, and Earth Sciences
+
+- [FalCon](https://github.com/idaholab/falcon) - Fracturing and liquid conservation; geothermal reservoir simulation and analysis code for coupled and fully implicit Thermo-Hydro-Mechanical-Chemical (THMC) geosystems
+- [Redback](https://github.com/pou036/redback) - Rock Mechanics with Dissipative (Thermo-Hydro-Mechanical-Chemical) Feedbacks: joint development between CSIRO and UNSW Australia
+
+
+### Miscellaneous
+
+- [moopy](https://github.com/aurora-multiphysics/moopy) - Python interface that simplifies (ish) the creation of MOOSE inputs
+- [Proteus](https://github.com/aurora-multiphysics/proteus) - For developing Fusion Digital Twins.
+- [Ranger](https://github.com/idaholab/ranger) - Python-based auto-response bot that uses the GitHub API and LlamaIndex package to monitor and generate relevant responses for new discussions
+- [Virtual Test Bed](https://mooseframework.inl.gov/virtual_test_bed/) - An open repository of simulations of nuclear systems
+
+
+## Closed Source Applications
+
+These applications require a license. Many of them can be obtained through the [NCRC website](https://ncrcaims.inl.gov/).
+
+### Nuclear Engineering Advanced Modeling and Simulation (NEAMS) tools
+
+- [BISON](https://inlsoftware.inl.gov/product/bison) - Flagship fuels performance code
+- Centipede - A tool to inform engineering scale simulations with atomistic data
+- [GRIFFIN](https://inlsoftware.inl.gov/product/griffin) - Reactor physics code co-developed between Argonne and Idaho National Laboratory
+- [GRIZZLY](https://inlsoftware.inl.gov/product/grizzly) - Nuclear Plant System Degradation Modeling
+- [MARMOT](https://inlsoftware.inl.gov/product/marmot) - Nuclear materials phase field and mechanics application
+- [PRONGHORN](https://inlsoftware.inl.gov/product/pronghorn) - Transient prismatic and pebble bed reactor analysis code
+- [RELAP7](https://inlsoftware.inl.gov/product/relap7) - Next Generation nuclear reactor system safety analysis code (compressible flow)
+- SAM - Advanced nuclear reactor system analysis code (weakly-compressible flow)
+- [Sockeye](https://inlsoftware.inl.gov/product/sockeye) - Multi-fidelity studies of heat pipes for nuclear applications
+- SWIFT - A thermo-chemistry tool for metal hydride moderators
+
+Combined applications
+
+- DIREWOLF - Advanced reactor multiphysics simulation suite including Griffin, Bison, Sockeye
+- BLUECRAB - Advanced reactor multiphysics simulation suite including Griffin, Bison, Pronghorn, SAM (and Sockeye for special builds)
+- SABERTOOTH - Advanced reactor multiphysics simulation suite
+
+### Others
+
+- Great White - 3D discrete dislocation dynamic application using the Mechanics of Defects Library
+- Mixcoatl$^{TM}$ - Conjugate heat transfer in microreactors
+
+
+## Legacy software
+
+We list here older, unmaintained, projects for consideration when naming a new project.
+
+### Open source
+
+- [Achlys](https://github.com/aurora-multiphysics/achlys) - Macroscopic tritium transport processes through fusion materials
 - [Dendragapus](https://github.com/jarons/dendragapus) - Application to explore modifications to Picard Iteration
 - [Slug](https://github.com/adamLange/slug) - Hyperloop air bearing simulation tool
-- [Redback](https://github.com/pou036/redback) - Rock Mechanics with Dissipative (Thermo-Hydro-Mechanical-Chemical) Feedbacks: joint development between CSIRO and UNSW Australia
+- [MaCaw](https://github.com/idaholab/macaw) - Domain-decomposed unstructured mesh Monte Carlo particle transport using OpenMC as a collision physics library
+- [Isopod](https://github.com/idaholab/isopod) - Multiphysics PDE constrained optimization
 
-## Idaho National Laboratory Applications
 
-Please contact the [MOOSE Discussion forum](help/contact_us.md) if you are interested in using one of these applications.
+### Closed source
 
-- MARMOT - Nuclear materials phase field and mechanics application
-- RATTLESNAKE - FEM Diffusion, SN, and PN code
-- BISON - Flagship fuels performance code
-- RELAP7 - Next Generation nuclear reactor system safety analysis code
-- PRONGHORN - Transient prismatic and pebble bed reactor analysis code
+- BIGHORN - Compressible fluid dynamics code
+- ELK - Former application for the electromagnetics module
+- FENIX - Multiphysics simulation suite with Griffin and Pronghorn, including Xenon and Samarium effects
 - MAMMOTH - Reactor physics application
-- YAK - Common object library for INL particle transport codes
+- [Okami](https://hpcgitlab.hpc.inl.gov/idaholab/okami/) - Mixed Oxide fuel studies
 - OSPREY - Off-gas SeParation and REcoverY for dispersed plug flow in a packed bed.
-- BIGHORN - Compressible fluid dynamics code
-
-## Private Apps
-
-- [HOGNOSE-Dev](https://github.com/shortlab/hognose-dev) - Development (private) repo for HOGNOSE
-- [MAMBA-Dev](https://github.com/shortlab/mamba-dev) - Development (private) repo for MAMBA
-- [GRIME-Dev](https://github.com/shortlab/grime-dev) - Development (private) repo for GRIME
+- RATTLESNAKE - FEM Diffusion, SN, and PN code
+- YAK - Common object library for INL particle transport codes
+- YellowJacket - Nuclear reactor coolant chemistry