The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
-
Updated
Nov 7, 2024 - MATLAB
The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
Metabolic Engineering Workbench
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
Analyses for "State of the field in multi-omics research: from computational needs to data mining and sharing"
Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and host with or without metabolomics data
GenoCraft: A Comprehensive, User-Friendly Web Platform for High-Throughput Omics Data Analysis and Visualization (https://arxiv.org/pdf/2312.14249)
📦 Omics Data Analysis Tools
Genome-scale model of Yarrowia lipolytica.
Diversity-based enumeration of optimal context-specific metabolic networks
MicrobiomeStat Tutorial Repository: This is a comprehensive resource for learning how to use the MicrobiomeStat package. It provides a step-by-step guide to effectively analyze complex microbiome data.
GitHub Repository associated with the piQTL project (Mapping effects of genome-wide genetic variation to protein-protein interactions reveals molecular mechanisms of complex traits) [ Serohijos & Michnick Lab, Université de Montréal ]
Metabolic Drug Repurposing Pipeline
Modeling the metabolic changes during the epithelial-to-mesenchymal transition.
IgemRNA is an open access toolbox for transcriptome data statistical and biochemical network topology-based analysis. IgemRNA was developed in the MATLAB environment in order to take advantage of the up-to-date and most commonly distributed GSM modelling tool Cobra Toolbox 3.0 and spreadsheet file capabilities.
Curated list of analysis pipelines for biological & clinical interpretation of data-driven findings
Probabilistic O2PLS
TBN_learning is a MATLAB implemented hybrid algorithm for learning the structure of transcriptional Bayesian networks on a genome-wide scale.
Code to reproduce preprocessing analysis of IBD dataset from the Human Microbiome Project. This work will provide a walk through analysis tool for the scientific community with less technical knowledge on data science and machine learning.
Constraint-based metabolic modeling software from the Chandrasekaran Lab
Multi-omics differential expression and integration using PPI networks
Add a description, image, and links to the omics-data-integration topic page so that developers can more easily learn about it.
To associate your repository with the omics-data-integration topic, visit your repo's landing page and select "manage topics."