scientific-computing
20
synthetic-control
Use this Skill for synthetic control causal inference: donor pool selection, weight optimization via scipy, pre-period balance, post-period gap plot, placebo tests, and permutation p-values.
xjtulyc
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scientific-computing
20
control-systems
Control systems analysis and PID design with python-control and scipy.signal: transfer functions, Bode/Nyquist plots, root locus, stability margins, and step-response simulation for SISO and discrete-time systems.
xjtulyc
research
scientific-computing
20
pymatgen-materials
Use this Skill for materials science with pymatgen: crystal structure manipulation, Materials Project API queries (bandgap, DOS, formation energy), phase diagrams, and symmetry analysis.
xjtulyc
research
scientific-computing
20
ase-atomistic
Atomic Simulation Environment (ASE) for atomistic simulations: structure building, geometry optimization, NEB, molecular dynamics, and trajectory analysis.
xjtulyc
research
scientific-computing
20
complexity-science
Complex systems methods: power-law fitting, Hurst exponent, fractal dimension, Mesa agent-based modeling, sample entropy, percolation, and information theory.
xjtulyc
research
scientific-computing
20
mdanalysis-trajectory
Analyze molecular dynamics trajectories with MDAnalysis — RMSD, RMSF, hydrogen bonds, contact maps, and protein-ligand distances.
xjtulyc
research
scientific-computing
19
pooch
Data file fetching and caching for geoscience applications. Download sample datasets with automatic caching, checksum verification, and multiple download sources. Use when Claude needs to: (1) Download datasets from URLs or DOIs, (2) Cache files locally with automatic verification, (3) Verify file integrity with SHA256/MD5 hashes, (4) Extract compressed archives (ZIP, TAR, GZIP), (5) Create data registries for reproducible workflows, (6) Fetch from Zenodo or other repositories.
SteadfastAsArt
research
scientific-computing
19
welly
Subsurface well data analysis toolkit for loading, processing, and analyzing well logs, projects, and formation tops. Built on lasio with enhanced curve processing. Use when Claude needs to: (1) Load wells from LAS files with metadata, (2) Work with multi-well Projects, (3) Process curves (despike, smooth, resample, normalize), (4) Manage formation tops, (5) Export well data to DataFrame/LAS/CSV, (6) Perform cross-well analysis and QC.
SteadfastAsArt
research
scientific-computing
19
query-kegg
Query KEGG for biological pathways and gene info. Use when user asks about metabolic pathways, signaling pathways, pathway genes, or KEGG IDs. Triggers on "kegg", "pathway", "metabolic pathway", "signaling pathway", "pathway genes".
IDEA-XL
research
scientific-computing
19
devito
Symbolic PDE solver with automatic code generation for finite-difference computations. Use when Claude needs to: (1) Perform seismic wave propagation modeling, (2) Implement acoustic or elastic wave equations, (3) Run forward modeling for shot gathers, (4) Set up Full Waveform Inversion (FWI) workflows, (5) Implement Reverse Time Migration (RTM), (6) Create absorbing boundary conditions, (7) Generate optimized stencil code for CPUs/GPUs, (8) Solve custom PDEs with finite differences.
SteadfastAsArt
research
scientific-computing
19
gempy
3D structural geological modeling using implicit methods. Create geological models with faults, folds, and unconformities from surface points and orientations. Use when Claude needs to: (1) Build 3D geological models from surface contacts and orientations, (2) Model faults, unconformities, or intrusions, (3) Compute and visualize subsurface geology, (4) Export models to VTK or numpy arrays, (5) Generate gravity forward models, (6) Create cross-sections or 3D visualizations.
SteadfastAsArt
research
scientific-computing
19
geostatspy
GSLIB-inspired geostatistics library for variogram analysis, kriging, and simulation. Use when Claude needs to: (1) Calculate experimental variograms, (2) Fit variogram models, (3) Perform simple/ordinary kriging, (4) Run sequential Gaussian simulation (SGSIM), (5) Apply normal score transforms, (6) Decluster spatial data, (7) Generate multiple realizations for uncertainty.
SteadfastAsArt
research
scientific-computing
19
loopstructural
Build 3D geological models with implicit surfaces, faults, folds, and stratigraphic constraints from structural geology data. Use when Claude needs to: (1) Build 3D geological models from structural data, (2) Model fault networks and displacements, (3) Create folded geology representations, (4) Interpolate geological surfaces, (5) Export models to VTK for visualization, (6) Perform uncertainty analysis on geological models, (7) Evaluate model values on grids.
SteadfastAsArt
research
scientific-computing
19
pastas
Groundwater time series analysis and modelling using transfer function noise models. Use when Claude needs to: (1) Analyze groundwater level time series, (2) Model well responses to precipitation/pumping, (3) Calibrate aquifer parameters from head data, (4) Forecast or hindcast groundwater levels, (5) Decompose hydrological signals into components, (6) Compare response functions, (7) Perform model diagnostics and uncertainty analysis.
SteadfastAsArt
research
scientific-computing
19
pyrolite
Geochemistry data analysis and visualization for igneous, metamorphic, and sedimentary rocks. Use when Claude needs to: (1) Create ternary diagrams for compositional data, (2) Plot REE spider diagrams with normalization, (3) Build TAS or other classification diagrams, (4) Apply log-ratio transforms to compositional data, (5) Calculate CIPW norms, (6) Generate Harker variation diagrams, (7) Compute element ratios and anomalies.
SteadfastAsArt
research
scientific-computing
19
pyvista
3D visualization and mesh analysis for geoscience data using PyVista/VTK. Use when Claude needs to: (1) Create 3D visualizations of geological models, (2) Render seismic volumes or voxel data, (3) Visualize point clouds or well paths, (4) Plot surfaces and meshes in 3D, (5) Read/write VTK, STL, OBJ files, (6) Create cross-sections through 3D models, (7) Export publication-quality figures or interactive HTML.
SteadfastAsArt
research
scientific-computing
19
query-reactome
Query Reactome for biological pathways and reactions. Use when user asks about signaling cascades, biological processes, pathway diagrams, or reaction details. Triggers on "reactome", "signaling cascade", "biological pathway", "pathway diagram", "reaction mechanism".
IDEA-XL
research
scientific-computing
19
imaging-data-commons
Query and download public cancer imaging data from NCI Imaging Data Commons using idc-index. Use for accessing large-scale radiology (CT, MR, PET) and pathology datasets for AI training or research. No authentication required. Query by metadata, visualize in browser, check licenses.
x-cmd
research
scientific-computing
19
query-uniprot
Query UniProt protein database. Use when user asks about protein sequences, functions, annotations, domains, or protein identifiers. Triggers on "uniprot", "protein function", "protein sequence", "gene product", "protein info".
IDEA-XL
research
scientific-computing
18
deepchem-circular-featurization
Use this skill to compute compact DeepChem circular fingerprints from a small set of SMILES strings with the repo-managed DeepChem prefix. Do not use it for model training, docking, or large library screening.
ma-compbio-lab
research
scientific-computing
18
copy-number
Workflow for copy-number estimation, segmentation, annotation, and visualization in sequencing-based assays.
zongtingwei
research
scientific-computing
18
hi-c-3d-genomics
Workflow for Hi-C and related 3D genomics analyses including compartments, loops, TADs, differential contacts, and visualization.
zongtingwei
research