Man pages for MalathiSIDona/pathDESeq
Pathway-Based Differential Expression Analysis for RNA-Seq Data
| adj2mat | Convert adjacency list into an adjacency matrix. |
| BioGRID.table | BioGRID gene interaction information |
| calc.ldpois | Calculate the logarithm of Poisson probability mass function |
| CRC.data | A RNA-Seq gene expression data set for colorectal cancer |
| data1065 | Simulated RNA-Seq data |
| dr.mat | Calculate the log likelihood using Gaussian quadrature method... |
| estDE | Estimate Differential Expression states |
| getTableAddressing | Get the adjacency list addressing template. |
| neib1065 | Neighbourhood matrix for 1065 genes |
| neibMat | Create the neighbourhood matrix |
| pathDESeq-package | Pathway-Based Differential Expression Analysis for RNA-Seq... |
| pgbEst | Poisson-Gamma-Beta model parameter estimation |
| pgbmrfICM | Function to perform PGBMRF model |
| Reactome24.Hs | Reactome pathway information for Homo sapiens |
| Reactome6.Hs | Reactome pathway genes list for 6 selected Homo sapiens... |
| Reactome.genes | Reactome pathway gene list |
| state1065 | Simulated Differential Expression states for 1065 genes |
| symmetricize | Make a matrix symmetric |
| ttest | Perform two independent sample t test |
| ur.mat | Calculate the log likelihood using Gaussian quadrature method... |
