synthetic-sciences/openscience - Page 10

physics-databases

Query physics databases — NIST CODATA constants, NIST Chemistry WebBook, Materials Project, Particle Data Group (PDG), OEIS sequences. Always use these instead of hardcoding physical constants.

physics-fitting

Nonlinear curve fitting for physics data with proper error propagation, chi-squared analysis, residual diagnostics, confidence intervals, and model comparison (AIC/BIC). Use for any parameter extraction from experimental or simulation data.

physics-visualization

Publication-quality physics plots — vector fields, streamlines, contour maps, 3D surfaces, phase space, spectrograms, and animations. Optimized for journal submission with LaTeX labels, proper colormaps, and multi-panel layouts.

pinn-training

Train Physics-Informed Neural Networks (PINNs) using DeepXDE. Solve forward and inverse PDE problems by embedding physics equations into the neural network loss function. Supports 1D/2D/3D, time-dependent, and parametric PDEs.

shock-capturing-neural-operators

Architectures and techniques for neural operators on discontinuous PDE solutions (shocks, contact discontinuities, steep gradients). Covers local-global spectral design (ShockFNO), reflection padding for non-periodic BCs, resolution scaling for shock width,…

sindy-identification

Sparse Identification of Nonlinear Dynamics (SINDy) — discover governing equations from time-series data. Builds sparse dynamical system models dx/dt = f(x) from measurements using PySINDy. Use when you have trajectory data and want to find the underlying ODE.

spectral-analysis

Frequency-domain analysis — FFT, power spectral density (Welch/periodogram), spectrograms, wavelet transforms, and coherence. Use for any signal with periodic, quasi-periodic, or transient frequency content in physics data.

statistical-mechanics

Monte Carlo simulation for statistical mechanics — Ising model, Metropolis-Hastings, Wolff cluster algorithm, observables (magnetization, susceptibility, specific heat), finite-size scaling, and critical phenomena analysis.

symbolic-regression

Discover governing equations from data using PySR (evolutionary symbolic regression). Physics-constrained search with dimensional analysis, custom operators, and complexity-accuracy tradeoffs. Use when you need an interpretable equation, not a black-box model.

wave-propagation

Simulate wave propagation — acoustic, electromagnetic, elastic, and quantum waves. FDTD, spectral methods, and absorbing boundary conditions for 1D/2D/3D wave equations with sources, scattering, and dispersion.

dna-visualization

Publication-quality DNA/RNA visualizations. Plasmid maps (circular/linear), sequence logos, restriction enzyme maps, GC content plots, and gene feature annotation tracks from GenBank/FASTA.

protein-diagram

Publication-quality protein analysis diagrams. Domain architecture maps, secondary structure annotation, Ramachandran plots, contact maps, multiple sequence alignment visualization, and protein feature tracks.

bun-file-io

Use this when you are working on file operations like reading, writing, scanning, or deleting files. It summarizes the preferred file APIs and patterns used in this repo. It also notes when to use filesystem helpers for directories.