Man pages for chrischen1/viper_copy
Virtual Inference of Protein-activity by Enriched Regulon analysis
| aecdf | Approximate empirical commulative distribution function |
| approxk2d | approxk2d |
| aracne2regulon | Regulon object generation from ARACNe results |
| aracne2regulon4cnv | Regulon object generation from ARACNe results corrected by... |
| aREA | analytic Rank-based Enrichment Analysis |
| as.dist.signatureDistance | Distance matrix from signatureDistance objects |
| bootstrapmsviper | msviper bootstraps integration |
| bootstrapTtest-methods | Bootstrapped signature by t-test |
| bootstrapViper | bootstrapsViper |
| comNames | Combinatorial annotation |
| distMode | Mode of continuous distributions |
| fcvarna | Variance of columns for arrays with NA values |
| filterColMatrix | Filter for columns of a matrix with no loss of col and row... |
| filterCV-methods | Coefficient of variation filter |
| filterRowMatrix | Filter for rows of a matrix with no loss of col and row names |
| frcv | Coeficient of variations for rows |
| frvarna | Variance of rows for arrays with NA values |
| groupPwea3 | Proportionally Weighted Enrichment Analysis for gene-set... |
| integrateSignatures | Integrate signatures |
| ledge | Leading-edge analysis |
| loadExpset | Loading expression sets |
| msviper | msVIPER |
| msviperAnnot | msVIPER annotation change |
| msviper-class | The msviper class |
| msviperClass | msVIPER class |
| msviperCombinatorial | msviper combinatorial analysis |
| msviperSynergy | msviper synergy analysis |
| plot.msviper | Plot msviper results |
| pruneRegulon | Prune Regulons |
| pwea3NULLf | Null model function |
| pwea3NULLgroups | Regulon-specific NULL model |
| regulon-class | The regulon class |
| rowTtest-methods | Student's t-test for rows |
| scaleGroups | Signatures with grouping variable |
| scale.signatureDistance | Scaling of signatureDistance objects |
| shadow | Shadow analysis for msviper objects |
| shadowRegulon | Correction for pleiotropy |
| signatureDistance | Signature Distance |
| signatureDistance-class | signatureDistance |
| summary.msviper | List msviper results |
| ttestNull-methods | Null model by sample permutation testing |
| viper | VIPER |
| viperRPT | viperRPT |
| viperSignature-class | viperSignature |
| viperSignature-methods | Generic S4 method for signature and sample-permutation null... |
| viperSimilarity | VIPER similarity |
