st.gallen: Function to compute the St Gallen consensus criterion for...
In genefu: Computation of Gene Expression-Based Signatures in Breast Cancer

Description Usage Arguments Value Author(s) References See Also Examples

This function computes the updated St Gallen consensus criterions as published by Goldhirsh et al 2003.

1	st.gallen(size, grade, node, her2.neu, age, vascular.inv, na.rm = FALSE)

`size`	tumor size in cm.
`grade`	Histological grade, i.e. low (1), intermediate (2) and high (3) grade.
`node`	Nodal status (0 or 1 for no lymph node invasion a,d at least 1 invaded lymph ode respectively).
`her2.neu`	Her2/neu status (0 or 1).
`age`	Age at diagnosis (in years).
`vascular.inv`	Peritumoral vascular invasion (0 or 1).
`na.rm`	`TRUE` if missing values should be removed, `FALSE` otherwise.

Vector of risk predictions: "Good", "Intermediate", and "Poor".

Benjamin Haibe-Kains

Goldhirsh A, Wood WC, Gelber RD, Coates AS, Thurlimann B, and Senn HJ (2003) "Meeting highlights: Updated international expert consensus on the primary therapy of early breast cancer", Journal of Clinical Oncology, 21(17):3357–3365.

npi

## load NKI dataset
data(NKI)
## compute St Gallen predictions
st.gallen(size=demo.nkis[ ,"size"], grade=demo.nkis[ ,"grade"],
  node=demo.nkis[ ,"node"], her2.neu=sample(x=0:1, size=nrow(demo.nkis),
  replace=TRUE), age=demo.nkis[ ,"age"], vascular.inv=sample(x=0:1,
  size=nrow(demo.nkis), replace=TRUE), na.rm=TRUE)