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COMO Documentation
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Overview
Getting Started
Example Workflow
Flow Charts
Resources
Docker Installation Method
Overview
Installing Docker
Pulling the Container
Obtaining a Gurobi License
Starting the Container
Conda Installation Method
Overview
Conda/Mamba Installation
Clone COMO Repository
Install Dependencies
Obtaining a Gurobi License
Start COMO
API Arguments
Arguments Overview
Python Arguments
Create Context Specific Model
Disease Analysis
Knockout Simulation
Merge Omics
Proteomics Gen
RNA Seq Gen
RNA Seq Preprocess
Resources
Edit me
Below is a list of links used throughout this project:
Affy
AgiMicroRNA
Analyzing Agilent MicroArray Data in R
BioConductor Tutorials
BioMart
MyGene
BioDBNet
BioPython
BioServices
CobraPy
Docker
Official Tutorials
An Introduction to Common Components
An Overview of Containerization
Drug Repurposing Hub
Limma
(R package)
MatLab Runtime and Creating Python Packages from MatLab code
NCBI GEO
Python GEOparse
R GEOquery
openCOBRA
Python RESTful Tutorial
Flask SQLAlchemy
Building a RESTful API with Flask
R Language
R Tutorial
rpy2
SQLite Database Browser