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| netweavers-package | NetWeAvers: Weighted Averages for Networks |
| clust_2_proteinVH | Van Hoof Dataset |
| customSummarizer | Aggregate Quantified Peptides Values From a Data Frame |
| dataVH | Van Hoof Dataset |
| DEtest | Differential Expression Testing using Linear Models and Contrasts |
| DEtestVH | Van Hoof Dataset |
| esetSummarizer | Aggregate Quantified Peptides Values From an 'ExpressionSet' |
| ExpSetVH | Van Hoof Dataset |
| fillup | Combine Vectors of Varying Length into a Data Frame |
| filterNetwork | Filter a Network Based on Identifier |
| filtNetVH | Van Hoof Dataset |
| findDenseClusters | Find Dense Clusters in a Network |
| fisherMethod | Fisher's Method for Multiple Peptides |
| generateContrastMatrix | Differential Expression Testing using Linear Models and Contrasts |
| measureCalc | Calculate Protein Measures for NetWeAvers Algorithm |
| netweavers | NetWeAvers: Weighted Averages for Networks |
| networkVH | Van Hoof Dataset |
| permScores | Calculate Cluster Permutation _p_-Values and Scores |
| permTest | Calculate Cluster Permutation _p_-Values and Scores |
| phenoDataVH | Van Hoof Dataset |
| proteinInfoVH | Van Hoof Dataset |
| pvalsSumVH | Van Hoof Dataset |
| pvalueSummarizer | Fisher's Method for Multiple Peptides |
| runNetweavers | Perform the NetWeAvers Algorithm |
| scoreClusters | Calculate Total Cluster Score for All Clusters |
| summarizedExpSetVH | Van Hoof Dataset |
| summarizer | Aggregate Quantified Peptides Values |
| vanHoof | Van Hoof Dataset |
| weightCalc | Calculate Weights for NetWeAvers Algorithm |