marimo notebook by Pablo in Pablo Rodríguez Mier's Workspace

Graphviz in the browser. Zero installs. One line of Python. - pablormier/easydot

Causality in biomedicine: going beyond associations - 2026

To what extent can large-scale approaches accurately reconstruct classic signaling pathways? Here, authors revisit the EGF pathway using phosphoproteomics and kinase-substrate interactions

Mixed-integer optimization Mixed-integer programming is a type of constrained optimization problem that involves decision variables that can be both integer and continuous. A mixed-integer programming problem can be defined as follows: $$\begin{array}{ll}\mathop{\min }\limits_{{\bf{x}}\in {{\mathbb{R}}}^{n},\,{\bf{y}}\in {{\mathbb{Z}}}^{m}}&f({\bf{x}},{\bf{y}})\\ \,\text{subject to}\,&{g}_{i}({\bf{x}},{\bf{y}})\le 0,\quad i=1,2,\ldots ,k,\\...

New tool combines biological knowledge with machine learning to help researchers extract meaningful insights from complex omics data.

Spatial omics reveal tissue structures and can aid patient stratification. The authors present a method to identify patterns in tissue patches, enabling analysis of disease progression and treatment r...

the way we do it now

YouTube video by Stanford Online

Single-cell transcriptomics has revolutionized our understanding of cellular heterogeneity and drug perturbation effects. However, its high cost and the vast chemical space of potential drugs...

The goal of pyLemur is to simplify the analysis of multi-condition single-cell data. If you have collected a single-cell RNA-seq dataset with more than one condition, LEMUR predicts for each cell a...