rank_gct: Convert a GCT object's matrix to ranks
In cmap/cmapR: CMap Tools in R

Description Usage Arguments Value See Also Examples

Convert a GCT object's matrix to ranks

rank.gct(...)

rank_gct(g, dim = "col", decreasing = TRUE)

## S4 method for signature 'GCT'
rank_gct(g, dim = "col", decreasing = TRUE)

`...`	arguments passed on to `rank_gct`
`g`	the `GCT` object to rank
`dim`	the dimension along which to rank (row or column)
`decreasing`	boolean indicating whether higher values should get lower ranks

a modified version of g, with the values in the matrix converted to ranks

Other GCT utilities: annotate.gct(), melt.gct(), merge.gct(), subset.gct()

(ranked <- rank_gct(ds, dim="column"))
# scatter rank vs. score for a few columns
m <- mat(ds)
m_ranked <- mat(ranked)
plot(m[, 1:3], m_ranked[, 1:3],
  xlab="score", ylab="rank")