Man pages for mmnet
A metagenomic pipeline for systems biology
| anno | annotation profile of two sample data sets |
| checkMgrastMetagenome | Check whether the MGRAST annotation is completed |
| constructMetabolicNetwork | Metabolic network construction of microbiome |
| constructSSN | construct the state specific network |
| delMgrastInbox | Delete the files in you MG-RAST inbox |
| differentialAnalyzeNet | the KO difference abundance of specific state |
| estimateAbundance | Getting KO (KEGG ontology) and abundance information |
| generateMgrastWebkey | Generate your webkey on MGRAST |
| generateMgrastWebsession | Generate your websession |
| getKOPathwayInfo | Get the KEGG metabolic pathway information |
| getMgrastAnnotation | Get the annotation profile from MGRAST |
| listMgrastInbox | List the contents of the user inbox |
| listMgrastProject | List all the private projects you summitted to MGRAST |
| loadMetabolicData | Metabolic data loading |
| loginMgrast | Login to the MGRAST |
| mmnet-package | A metagenomic pipeline for systems biology |
| preprocessKOMetabolites | Preprocessing of KO's (enzyme's) metabolites |
| RefDbcache | Reference data for global metabolic construction |
| saveMetabolicData | Save a new version of the reference metabolic data |
| showMetagenomicNet | Visualiation of metabolic network |
| submitMgrastJob | Create a job on MGRAST |
| topologicalAnalyzeNet | Analyze the specific state network |
| updateKEGGPathway | Updating and saving the reference (KEGG metabolic pathway)... |
| uploadMgrast | Upload your sequence to MGRAST |
