Official and maintained implementation of the paper "Attention-Based Transformers for Instance Segmentation of Cells in Microstructures" [BIBM 2020].
An Artificial Life simulator for Investigating Noogenesis
Modular cloning simulation with the MoClo framework in Python
This repository contains the different resources derived or generated using ComPath
Integration of pathway-related information from Reactome in BEL
SigMat: A Classification Scheme for Gene Signature Matching
Genome scale metabolic model for Ogataea polymorpha NCYC495.
Convert proteomics data from ppm to cellular concentrations (g/gDCW) for enzyme constrained modeling
The FALCONET R package enables to build and visualise metabolic maps of GEM automatically with aid of cellDesigner 4.4 and R platform
Phenorewire is a henotype-aware metabolomics network rewiring analysis pipeline: it identifies metabolites that change how they co-regulate across biological states.
Bioinformatics Dependencies Platform - A better way to manage your bioinformatics data sources, search and query across multiple bioinformatics databases, tooling. Properly version and reproduce your research, generate citation and data acessibility statement.
Resources derived from PathMe
pyEnGNet: optimized reconstruction of gene co-expression networks using multi-GPU
Repository for our paper "When Does Gene Regulatory Network Inference Break? A Controlled Diagnostic Study of Causal and Correlational Methods on Single-Cell Data"
LLM-assisted orchestration and evaluation workflow for genetic circuit design using Cello-based CAD pipelines.
Unsupervised clustering of common human diseases based on GWAS and WGS data, with a focus on Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS)
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