Man pages for Pigengene
Infers biological signatures from gene expression data
| aml | AML gene expression profile |
| balance | Balances the number of samples |
| calculate.beta | Estimates an appropriate power value |
| check.nas | Removes 'NA's from a data matrix |
| check.pigengene.input | Quality check on the imput |
| combine.networks | Combines two or more networks |
| compact.tree | Reduces the number of genes in a decision tree |
| compute.pigengene | Computes the eigengenes |
| dcor.matrix | Computes distance correlation for give matrix |
| draw.bn | Draws a Bayesian network |
| eigengenes33 | Eigengenes of 33 modules |
| gene.mapping | Maps gene IDs |
| get.fitted.leaf | Returs the leaf for each sample |
| get.genes | List the (most relevant) genes for a decision tree. |
| get.used.features | Return the features used in a tree |
| learn.bn | Learns a Bayesian network |
| make.decision.tree | Creates a decision tree to classify samples using the... |
| mds | MDS gene expression profile |
| message.if | Conditional messaging. |
| module.heatmap | Plots heatmaps for modules |
| one.step.pigengene | Runs the entire Pigengene pipeline |
| pheatmap.type | Plots heatmap with clustering only within types. |
| pigengene | An object of class 'Pigengene' |
| pigengene-class | The pigengene class |
| Pigengene-package | Infers robust biological signatures from gene expression data |
| plot.pigengene | Plots and saves a 'pigengene' object |
| preds.at | Prediction using a possibly compacted tree |
| project.eigen | Infers eigengenes for given expression data |
| pvalues.manova | Computes pvalues for multi-class differential expression |
| save.if | Saves an object verbosely. |
| wgcna.one.step | Module identification |
