Construct iEDGE input object
construct_iEDGE(cn, gep, cisgenes, transgenes = NA, cn.fdat, gep.fdat, cn.pdat = NA, gep.pdat = NA)
| cn | matrix of epi-DNA alterations (m rows of alterations by n samples) |
|---|---|
| gep | matrix of gene expression (g rows of genes by n samples) |
| cisgenes | list of cis genes corresponding to each row in cn |
| transgenes | optional list of trans genes corresponding to each row in cn |
| cn.fdat | data frame of row annotations for cn, must have column of row identifiers, and optionally column of direction identifiers if one-sided DE tests are applied |
| gep.fdat | data frame of row annotaions for gep, must have column of row identifiers |
| cn.pdat | optional data frame of column annotations for cn |
| gep.pdat | optional data frame of column annotations for gep |