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 defined intervals of time since diagnosis, calendar year, and age at diagnosis.
post1PYOc(canc, brkst=c(0),binIndxt=1,brksy=c(1973),binIndxy=1,brksa=c(0),binIndxa=1,
Trt="rad",PYLong=FALSE,yearEnd,firstS,secondS)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.
Vector of breaks in years used to form tsd intervals/bins. An upper limit of 100, well beyond 40 years of SEER follow up currently available, is assumed/added to brkst internally, and should thus not be in brkst.
The index of the tsd interval for which py are to be computed by calling this function.
Vector of breaks used to form groups of calendar year at diagnosis intervals/bins. An upper limit of yearEnd (last year in SEER; a seerSet field) is assumed/added to brksy internally.
The index of the year interval for which py are to be computed by calling this function.
Vector of breaks used to form groups of age at diagnosis intervals/bins. An upper limit of 126 is assumed.
The index of the age at DX interval for which py are to be computed by calling this function.
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 of tsd.
This is taken from the seerSet object.
Vector of first cancers of interest as strings.
Vector of second cancers of interest as strings.
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. And after a few other slots, the last element is a trivial scalar, the py-weighted midpoint of the time interval selected.