post1PYO {SEERaBomb} | R Documentation |
Get person-years at risk and observed cases after first cancers
Description
Converts a canc data.frame into a list of objects containing information regarding person years at risk for a second cancer after having a first cancer, and the number observed, in a defined time since exposure interval and after a defined first cancer therapy.
Usage
post1PYO(canc, brks=c(0,2,5),binIndx=1,Trt="rad",PYLong=FALSE,yearEnd,firstS,secondS)
Arguments
canc |
Input canc data.frame that is already sex, and possibly race, specific, but not cancer specific, as treatment of any first cancer could potentially cause any second cancer. |
brks |
A vector of break points in years used to form time since diagnosis bins. |
binIndx |
The index of the interval for which py are to be computed by calling this function. |
Trt |
The treatment for the first cancers. Note that the second cancer treatment is irrelevant here, so the input canc must not be reduced to only certain treatment types. |
PYLong |
PYLong of tsd. |
yearEnd |
This is taken from the seerSet object. |
firstS |
Vector of first cancers of interest as strings. |
secondS |
Vector of second cancers of interest as strings. |
Value
A list where the first element is a list LPYM with as many PY matrices (PYM) as cancers in canc. The second element is a matrix of cases observed in this interval after this treatment, where row names are first cancers and column names are second cancers. The third element is a trivial scalar, the py-weighted midpoint of the time interval selected.
Note
After the SEER data is installed, see the script mkRRtsx.R in the examples folder.
Author(s)
Tom Radivoyevitch (radivot@ccf.org)
See Also
SEERaBomb-package, getE,seerSet