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comparison COBRAxy/docs/reference/built-in-models.md @ 550:4cf00f21f609 draft default tip

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author francesco_lapi
date Mon, 03 Nov 2025 14:49:49 +0000
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3 COBRAxy includes two pre-installed metabolic models for human metabolism analysis. 3 COBRAxy includes two pre-installed metabolic models for human metabolism analysis.
4 4
5 ## ENGRO2 (Recommended) 5 ## ENGRO2 (Recommended)
6 6
7 **Best for**: General metabolic analysis 7 **Best for**: Core metabolic analysis
8 8
9 - ~2,000 reactions, ~1,500 metabolites, ~500 genes 9 - ~500 reactions, ~400 metabolites, ~500 genes
10 - Balanced coverage 10 - Core metabolic model
11 - Core metabolic pathways well-represented
12 - **Use for**: Tissue profiling, disease comparisons, time-series analysis
13 11
14 ## Recon (Comprehensive) 12 ## Recon (Comprehensive)
15 13
16 **Best for**: Genome-wide studies 14 **Best for**: Genome-wide studies
17 15
18 - ~10,000 reactions, ~5,000 metabolites, ~2,000 genes 16 - ~10,000 reactions, ~5,000 metabolites, ~2,000 genes
19 - Most complete human metabolic network 17 - Most complete human metabolic network, including all metabolic pathways
20 - Includes rare and specialized pathways
21 - **Use for**: Comprehensive studies, rare diseases
22 18
23 ## Usage 19 ## Usage
24 20
25 ```bash 21 ```bash
26 # Specify model name in any COBRAxy tool 22 # Specify model name in any COBRAxy tool