Compartment and Hub Definitions Tune Metabolic Networks for Metabolomic Interpretations

<p>This archive contains data for a report by the same title.<br> Data relate to software projects MetaboNet and DyMetaboNet.<br> MetaboNet: https://github.com/tcameronwaller/metabonet<br> DyMetaboNet: https://github.com/tcameronwaller/dymetabonet</p> <p>File descriptions</p> <p>dymetabonet_2019-08-29.mp4 ... raw screen capture video of DyMetaboNet<br> dock_metabonet_2019-08-18.zip ... complete MetaboNet export<br> model_* ... curation of human metabolic model by MetaboNet<br> model_dymetabonet.zip ... format for DyMetaboNet<br> model_compartments* ... compartments<br> model_processes* ... processes<br> model_reactions* ... reactions<br> model_metabolites* ... metabolites<br> measurement_* ... curation of metabolomic measurements by MetaboNet<br> measurement_study_*_report.tsv ... summary of match measurements to metabolites<br> measurement_study_*.tsv ... metabolites&#39; fold changes and probabilities between groups<br> measurement_study_*_metaboanalyst.txt ... format for MetaboAnalyst<br> measurement_study_*_metaboanalyst_pair.txt ... format for MetaboAnalyst with sample pairs<br> network_* ... multiple definitions of metabolic networks<br> network_compartments-true_hubs-true.zip ... compartmental network with hubs<br> network_compartments-true_hubs-false.zip ... compartmental network without hubs<br> network_compartments-false_hubs-true.zip ... noncompartmental network with hubs<br> network_compartments-false_hubs-false.zip ... noncompartmental network without hubs<br> network_compartments-*_hubs_*/network_cytoscape.json ... format for Cytoscape<br> network_compartments-*_hubs_*/network_networkx.pickle ... format for NetworkX<br> network_compartments-*_hubs_*/nodes_reactions.pickle ... network&#39;s nodes for reactions<br> network_compartments-*_hubs_*/nodes_metabolites.pickle ... network&#39;s nodes for metabolites<br> network_compartments-*_hubs_*/links.pickle ... network&#39;s links<br> network_compartments-*_hubs_*/analysis/nodes_reactions.tsv ... nodes&#39; metrics relative to reactions<br> network_compartments-*_hubs_*/analysis/nodes_metabolites.tsv ... nodes&#39; metrics relative to metabolites<br> network_compartments-*_hubs_*/analysis/network_reactions.tsv ... network&#39;s metrics relative to reactions<br> network_compartments-*_hubs_*/analysis/network_metabolites.tsv ... network&#39;s metrics relative to metabolites<br> network_compartments-*_hubs_*/measurement/metabolites.tsv ... measurements on nodes for metabolites</p>