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openfpm_pdata

Napari-stress based image analysis pipeline for measuring physical stress in 68 microscopy recordings of oil droplets embedded in liver organoids.

Sequencing analysis pipeline for our paper "Human assembloids recapitulate periportal liver tissue in vitro"

Sequencing analysis pipeline for our paper "Human liver cholangiocyte organoids capture the heterogeneity of in vivo liver ductal epithelium"

Image-based pipeline for solving inhomogeneous reaction-diffusion PDEs in real-world porous geometries. Level-set method (multi-CPU) for reconstruction. Sparse grids (multi-GPU) for diffusion simulation. Parallel data structures from OpenFPM.

A Python library for reducing differential equations and dynamical systems.

Documentations for CD-CODE project

parallel parameter homotopy through bertini