Network diffusion-based analysis of omics for the identifcation of differentially enriched modules.
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Updated
Nov 24, 2021 - R
Network diffusion-based analysis of omics for the identifcation of differentially enriched modules.
MCRM: Mother Compact Recurrent Memory
The BioNE is a new pipeline that integrates embedding results from different graph embedding methods, providing a more comprehensive knowledge of the network and therefore better performance on prediction tasks.
Context-sensitive creation of kinetic equations in biochemical networks
This repository provides classic clustering algorithms and various internal cluster quality validation metrics and also visualization capabilities to analyse the clustering results
Identifying frequent patterns in graphs
R package associated with paper "Component response rate variation underlies the stability of highly complex finite systems" (Duthie, AB. 2020. Sci. Rep. 10:8296, https://www.nature.com/articles/s41598-020-64401-w). This repository contains all manuscript text and supplemental information, and all code for recreating analyses.
Translation of the MOGAMUN algorithm in Python as part of a biological network modeling course.
Pathway Activity Analysis and Metabolite Annotation for Untargeted Metabolomics using Probabilistic Modeling
Provides Tripal integration of biological networks including storage, loaders and visualzations
Cypher Queries regarding Hematological Markers Network Markers DB in Neo4j
Using spectral graph theory to analyze two biological networks
Modelling and Optimization of Models with a focus on Healthcare and Biological Networks
Connecting nodes
PyTorch Implementation of Biological Network Embedding.
Awesome list of research publications and media on biologically-motivated learning algorithms.
mND uses multi-layer Network Diffusion to find gene networks that contain high scoring genes. It considers two or more "layers" of genome-wide scores and an interactome.
In silico therapeutic target discovery using network attractors: avoiding pathological phenotypes
Streaming over networks
Probabilistic ODE model structure inference using MCMC
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