Man pages for vdumeaux/mixtApp
Matched Interaction across Tissues (MIxT) data analysis
| clinicalRanksum | Compute clinical ranksum for given tissue |
| cohort_boxplot | Generate boxplot. |
| cohort_heatmap | Generate heatmap plot for the given tissue and module. If the... |
| commonEnrichmentScoreGenes | Get common genes from er analysis with genelist and module |
| comparisonAnalyses | Compute all 4 different analyses for modules from two... |
| computeEigengenes | Computes module eigengenes for modules in the given tissues |
| geneOverlapTest | Compute gene overlap between genes from two tissues |
| getAllGenes | Returns a list of all genes found in all modules across all... |
| getAllGenesAndModules | Retrieves an overview of all genes and the modules they... |
| getAllModules | Get all modules a specific gene is found in. |
| getAllTissues | Get available tissues |
| getCohorts | Get available cohorts |
| getCommonGenes | Get common genes for given tissue, module, geneset and... |
| getCommonGOTermGenes | Get the common genes from the go term anlysis for a specific... |
| getEnrichmentForTissue | Get enrichment scores for all modules |
| getEnrichmentScores | Get enrichment scores for specific module, tissue and... |
| getGeneList | Get a list of genes for a specific module and tissue. |
| getGeneSetNames | Get gene set names available to the MIxT app |
| getGOScoresForTissue | Get all scores for a specific term in a tissue |
| getGOTermNames | Get all go term names |
| getGOTerms | Get go terms for the given module and tissue. Possible to... |
| getModules | Returns a list of modules found for the given tissue |
| getTOMGraphEdges | Get graph edges for a TOM graph for a given tissue |
| getTOMGraphNodes | Get graph nodes for a TOM graph for a given tissue |
| patientRankSum | Calculate patient rank sum scores for given tissues. |
| userEnrichmentScores | Get p-values from the hypergeometric test between an... |
