gene_compare_with_weights: compares the mean expression between two groups of genes in a...
In ptvan/Pmisc: Phu's Misc Functions

Description Usage Arguments Value Examples

compares the mean expression between two groups of genes in a given expression matrix, optionally makes boxplots of the comparison, faceted by gene used in a pipeline, so checks are pretty rudimentary

gene_compare_with_weights(
  dat,
  camera2output,
  genesetidx,
  grp1name = "group1",
  grp2name = "group2",
  grp1idx,
  grp2idx
)

`dat`	A matrix of gene expression
`camera2output`	output matrix from camera2()
`genesetidx`	a list of lists of gene indices
`grp1name`	String indicating name of the first group for the comparison
`grp2name`	String indicating name of the second group for the comparison
`grp1idx`	A vector of integer indices indicating columns belonging to group1
`grp2idx`	A vector of integer indices indicating columns belonging to group1

table of genes' mean expression values for each group

## Not run: 
out <- gene_compare(expressionMatrix
                   ,c("LAP3","NCOA7","IFIT2","STAT1","TRIM21")
                   ,grp1name = "control"
                   ,grp2name = "experimental"
                   ,which(grepl("control", colnames(expressionMatrix)))
                   ,which(grepl("experimental", colnames(expressionMatrix)))
                                  )

## End(Not run)