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Similarity/Homology Assessment by Relating K-mers

PICNIC (Proteins Involved in CoNdensates In Cells) is machine learning-based model that predicts proteins involved in biomolecular condensates.

Completly reimplmented Lipidxplorer, with adaptation layer to read lipidxplorer1 files

Repository containing the scripts used in Iglesias-Artola et al 2024. Quantitative imaging of species-specific lipid transport in mammalian cells

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

Pinc: a simple probabilistic AlphaFold interaction score

private repo with testing jupyter notebooks

This is a python implementation of the cycle coalescence algorithm as described by Modes et al, 2016.

Code accompanying "Inverse-Dirichlet Weighting Enables Reliable Training of Physics Informed Neural Networks", Maddu et al., 2021

Supplementary Jupyter notebook to our article "Lgr5+ stem/progenitor cells reside at the apex of the embryonic hepatoblast pool"

Theory analysis and code for studying Drosophila wing disc eversion

This repository contains source codes and notebook demos for trainin STENCIL-NET.

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

This software package implements the identification of robust topological defects.

This repository is all about simulating flow driven pruning in biological flow networks.