Explore projects

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

Backend APIs (Flask) exposing data from database in RESTful format

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

Documentations for CD-CODE project

Web frontend (VueJs) and CMS (Strapi)

openfpm_pdata

Library implementing TIGHT-CUT heuristic for solving FASP (Feedback Arc Set Problem)

Pinc: a simple probabilistic AlphaFold interaction score

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

Python Scripts to generate data in MongoDB after aggregation from source databases; update/modify data for the web app as well as the predictor; manipulate data for "Condensate Proteome Predictor"

A collection of tools to process and manipulate high-throughput sequencing data

Variant Effect Predictor (VEP) for missense variants in clinically actionable genes (ACMG SF v2.0).

Complementary information concerning the article: "The novel Rab5 effector FERRY links the early endosome with the translation machinery"

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

Segmentation of the basal cell-matrix contact sites on laminin structure

Complementary information concerning the article: "A 3D system to model human pancreas development and its reference single cell transcriptome atlas reveal signaling pathways required for progenitor expansion"

MATLAB Toolbox for cell-outline segmentation in phase-contrast images