52 skills found · Page 1 of 2
cjo4m06 / MCP Shrimp Task ManagerShrimp Task Manager is a task tool built for AI Agents, emphasizing chain-of-thought, reflection, and style consistency. It converts natural language into structured dev tasks with dependency tracking and iterative refinement, enabling agent-like developer behavior in reasoning AI systems.
cvg / Pixel Perfect SfmPixel-Perfect Structure-from-Motion with Featuremetric Refinement (ICCV 2021, Best Student Paper Award)
DLR-AMR / T8codeParallel algorithms and data structures for tree-based adaptive mesh refinement (AMR) with arbitrary element shapes.
llnl / SAMRAIStructured Adaptive Mesh Refinement Application Infrastructure - a scalable C++ framework for block-structured AMR application development
lucidrains / Invariant Point AttentionImplementation of Invariant Point Attention, used for coordinate refinement in the structure module of Alphafold2, as a standalone Pytorch module
nanguoshun / LSRPytorch Implementation of our ACL 2020 Paper "Reasoning with Latent Structure Refinement for Document-Level Relation Extraction"
manifoldbio / Mber OpenmBER - Manifold Binder Engineering and Refinement. mBER enables antibody binder design by leveraging structure templates and sequence conditioning in backprop design through AlphaFold-Multimer. Preprint: https://www.biorxiv.org/content/10.1101/2025.09.26.678877v1
Bin-Cao / PyWPEM[https://bin-cao.github.io/PyWPEM] AI-Driven Structure Refinement of X-ray Diffraction
ShelvanLee / XFEM# XFEM_Fracture2D ### Description This is a Matlab program that can be used to solve fracture problems involving arbitrary multiple crack propagations in a 2D linear-elastic solid based on the principle of minimum potential energy. The extended finite element method is used to discretise the solid continuum considering cracks as discontinuities in the displacement field. To this end, a strong discontinuity enrichment and a square-root singular crack tip enrichment are used to describe each crack. Several crack growth criteria are available to determine the evolution of cracks over time; apart from the classic maximum tension (or hoop-stress) criterion, the minimum total energy criterion and the local symmetry criterion are implemented implicitly with respect to the discrete time-stepping. ### Key features * *Fast:* The stiffness matrix and the force vector (i.e. the equations' system) and the enrichment tracking data structures are updated at each time step only with respect to the changes in the fracture topology. This ultimately results in the major part of the computational expense in the solution to the linear system of equations rather than in the post-processing of the solution or in the assembly and updating of the equations. As Matlab offers fast and robust direct solvers, the computational times are reasonably fast. * *Robust.* Suitable for multiple crack propagations with intersections. Furthermore, the stress intensity factors are computed robustly via the interaction integral approach (with the inclusion of the terms to account for crack surface pressure, residual stresses or strains). The minimum total energy criterion and the principle of local symmetry are implemented implicitly in time. The energy release rates are computed based on the stiffness derivative approach using algebraic differentiation (rather than finite differencing of the potential energy). On the other hand, the crack growth direction based on the local symmetry criterion is determined such that the local mode-II stress intensity factor vanishes; the change in a crack tip kink angle is approximated using the ratio of the crack tip stress intensity factors. * *Easy to run.* Each job has its own input files which are independent form those of all other jobs. The code especially lends itself to running parametric studies. Various results can be saved relating to the fracture geometry, fracture mechanics parameters, and the elastic fields in the solid domain. Extensive visualisation library is available for plotting results. ### Instructions 1. Get started by running the demo to showcase some of the capabilities of the program and to determine if it can be useful for you. At the Matlab's command line enter: ```Matlab >> RUN_JOBS.m ``` This will execute a series of jobs located inside the *jobs directory* `./JOBS_LIBRARY/`. These jobs do not take very long to execute (around 5 minutes in total). 2. Subsequently, you can pick one of the jobs inside `./JOBS_LIBRARY/` by defining the job title: ```Matlab >> job_title = 'several_cracks/edge/vertical_tension' ``` 3. Then you can open all the relevant scripts for this job as follows: ```Matlab >> open_job ``` The following input scripts for the *job* will be open in the Matlab's editor: 1. `JOB_MAIN.m`: This is the job's main script. It is called when executing `RUN_JOB` (or `RUN_JOBS`) and acts like a wrapper. Notably, it can serve as a convenient interface to run parametric studies and to save intermediate simulation results. 2. `Input_Scope.m`: This defines the scope of the simulation. From which crack growth criteria to use, to what to compute and what results to show via plots and/or movies. To put it simply, the script is a bunch of "switches" that tell the program what the user wants to be done. 3. `Input_Material.m`: Defines the material's elastic properties in different regions or layers (called "phases") of the computational domain. Moreover, it defines the fracture toughness of the material (assumed to be constant in all material phases). 4. `Input_Crack.m`: Defines the initial crack geometry. 5. `Input_BC.m`: Defines boundary conditions, such as displacements, tractions, crack surface pressure (assumed to be constant in all cracks), body loads (e.g. gravity, pre-stress or pre-strain). 6. `Mesh_make.m`: In-house structured mesh generator for rectangular domains using either linear triangle or bilinear quadrilateral elements. It is possible to mesh horizontal layers using different mesh sizes. 7. `Mesh_read.m`: Gmsh based mesh reader for version-1 mesh files. Of course you can use your own mesh reader provided the output variables are of the correct format (see later). 8. `Mesh_file.m`: Specifies the mesh input file (.msh). At the moment, only Gmsh mesh files of version-1 are allowed. ### Mesh_file.m A mesh file needs to be able to output the following data or variables: * `mNdCrd`: Node coordinates, size = `[nNdStd, 2]` * `mLNodS`: Element connectivities, size = `[nElemn,nLNodS]` * `vElPhz`: Element material phase (or region) ID's, size = `[nElemn,1]` * `cBCNod`: cell of boundary nodes, cell size = `{nBound,1}`, cell element size = `[nBnNod,2]` Example mesh files are located in `./JOBS_LIBRARY/`. Gmsh version-1 file format is described [here](http://www.manpagez.com/info/gmsh/gmsh-2.4.0/gmsh_60.php). ### Additional notes * global variables are defined in `.\Routines_AuxInput\Declare_Global.m` * External libraries are `.\Other_Libs\distmesh` and `.\Other_Libs\mesh2d` ### References Two external meshing libraries are used for the local mesh refinement and remeshing at the crack tip during crack propagation or prior to a crack intersection with another crack or with a boundary of the domain. Specifically, these libraries, which are located in `.\Other_Libs\`, are the following: * [*mesh2d*](https://people.sc.fsu.edu/~jburkardt/m_src/mesh2d/mesh2d.html) by Darren Engwirda * [*distmesh*](http://persson.berkeley.edu/distmesh/) by Per-Olof Persson and Gilbert Strang. ### Issues and Support For support or questions please email [sutula.danas@gmail.com](mailto:sutula.danas@gmail.com). ### Authors Danas Sutula, University of Luxembourg, Luxembourg. If you find this code useful, we kindly ask that you consider citing us. * [Minimum energy multiple crack propagation](http://hdl.handle.net/10993/29414)
pablopalafox / PhotometricBAPhotometric Bundle Adjustment as a refinement step after feature-based Structure-from-Motion
diffpy / Diffpy.pdfguigraphical user interface for real space structure refinement to PDF
keitaroyam / ServalcatStructure refinement and validation for crystallography and single particle analysis
zkl20061823 / JTFNJoint Topology-preserving and Feature-refinement Network for Curvilinear Structure Segmentation (ICCV21)
glycojones / PrivateerThe Swiss Army knife for carbohydrate structure validation, refinement and analysis
BioinfoMachineLearning / ATOMRefine3D equivariant graph transformer for all-atom refinement of protein tertiary structures
likuanppd / STABLEsource code of KDD 2022 paper "Reliable Representations Make A Stronger Defender: Unsupervised Structure Refinement for Robust GNN".
ccmusic-database / Ccmusic EvalCCMusic, an open Chinese music database, integrates diverse datasets. It ensures data consistency via cleaning, label refinement and structure unification. A unified evaluation framework is used for benchmark evaluations, supporting classification and detection tasks.|CCMusic是一个开放的中文音乐数据库，整合了多样化数据集。通过数据清洗、标签优化和结构统一化确保数据一致性。使用统一评估框架进行基准评估，支持分类和检测任务。
bsmi021 / MCP Chain Of Draft ServerChain of Draft Server is a powerful AI-driven tool that helps developers make better decisions through systematic, iterative refinement of thoughts and designs. It integrates seamlessly with popular AI agents and provides a structured approach to reasoning, API design, architecture decisions, code reviews, and implementation planning.
serizba / SfM TTRSfM-TTR: Using Structure from Motion for Test-Time Refinement of Single-View Depth Networks
Jian-Zhan / RNA BRiQRobust RNA structure refinement by a nucleobase-centric sampling algorithm coupled with a backbone rotameric and quantum-mechanical-energy-scaled base-base knowledge-based potential
