networks-biology
There are 3 repositories under networks-biology topic.
- Language:Python 131
- Language:R 94
covid19kg / covid19kg
COVID-19 Knowledge Graph: a computable, multi-modal, cause-and-effect knowledge model of COVID-19 pathophysiology
Language:Python 45- Language:Jupyter Notebook 35
pedroj / bipartite_plots
`ggbipart`, an R package for plotting bipartite networks
Language:HTML 30- doctoral-thesis
cthoyt / doctoral-thesis
📖 Generation and Applications of Knowledge Graphs in Systems and Networks Biology
Language:TeX 29 drug2ways / drug2ways
A Python package for drug discovery by analyzing causal paths on multiscale networks
Language:Python 27- Language:Python 13
PedroMTQ / UniFuncNet
A multi-reference network annotation tool to support omics analysis
Language:Python 13MuonRay / QuantumNetworkSimulations
A series of simulation codes used to emulate quantum-like networks in the simulation of emergent adaptive behavior, such as network synchronization, and relate the nature of the coupled harmonic oscillators with non-local behavior and chimera states in systems of quantum particles. Coding Used is based on mathematical modelling of transport in quantum many-body systems and networks made tractable using the quantum newtons cradle. A full showcase of this project is discussed in the following videos:https://www.youtube.com/watch?time_continue=115&v=WX3Ds_xCOaE
Language:Python 11bel2scm / bel2scm
Generate dynamic structural causal models from biological knowledge graphs encoded in the Biological Expression Language (BEL)
Language:Jupyter Notebook 10yollct / spycone
Spicing-aware time-course network enricher - exploratory analysis for transcriptomics and/or proteomics time series data
Language:Python 10- Language:Python 9
alextkalinka / linkcomm
Tools for Generating, Visualising, and Analysing Link Communities in Networks
Language:R 7daniaki / pyPPI
A machine learning tool to assign edges in protein-protein interaction networks with a function.
Language:Python 7PathwayMerger / PathMe-Viewer
A web application for visualizing and exploring pathway knowledge in Biological Expression Language (BEL)
Language:JavaScript 6- Language:Python 5
- Language:Python 5
bel-commons / bel-commons
An environment for curating, validating, and exploring knowledge assemblies encoded in BEL
Language:HTML 4- Language:Python 4
marmello77 / mello-et-al-2019-SD1
Supplementary data 1 of the paper Mello et al. 2019 (NatureEcoEvo).
Language:R 4montilab / ppi-context
Contextualization of protein-protein interaction databases by cell line
Language:Python 4- Language:R 4
pharmacome / conib
Curation of Neurodegeneration in Biological Expression Language (CONIB)
Language:Jupyter Notebook 4hemekg / hemekg
Modeling heme pathogenicity and pathway dysregulation in the context of hemolytic disorders
Language:Python 3bdpedigo / neuropull
A (soon to be) lightweight Python package for accessing single-cell connectome networks with metadata.
Language:Python 2BioPhys-Turin / biophys-turin.github.io
Official site of Biophys group at Unito
Language:HTML 2hooman650 / BioModelChecker
Bio-ModelChecker: Using Bounded Constraint Satisfaction to Seamlessly Integrate Observed Behavior with Prior Knowledge of Biological Networks
Language:Python 2bio2bel / bio2bel-manuscript
LaTeX source for "Bio2BEL: Integration of Structured Knowledge with Biological Expression Language"
Language:TeX 1- Language:Python 1
DavisLaboratory / pyPPI
A machine learning tool to assign edges in protein-protein interaction networks with a function.
Language:Python 1NeuroTechnologies / DyNetCP
Codebase for discovery of latent dynamic connectivity in brain cortical networks
Language:Jupyter Notebook 1- Language:R 1
saezlab / network_tools
Collection of Python functions to run network-based analysis in signed and directed networks.
Language:Jupyter Notebook 1rwovenxkyears / ETH-Drain
ETH Drain
0
