post1PYOc: Get person-years at risk and observed cases after first...
In SEERaBomb: SEER and Atomic Bomb Survivor Data Analysis Tools

Description Usage Arguments Value Author(s) See Also

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.

1 2	post1PYOc(canc, brkst=c(0),binIndxt=1,brksy=c(1973),binIndxy=1,brksa=c(0),binIndxa=1, Trt="rad",PYLong=FALSE,yearEnd,firstS,secondS)

`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.
`brkst`	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.
`binIndxt`	The index of the tsd interval for which py are to be computed by calling this function.
`brksy`	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.
`binIndxy`	The index of the year interval for which py are to be computed by calling this function.
`brksa`	Vector of breaks used to form groups of age at diagnosis intervals/bins. An upper limit of 126 is assumed.
`binIndxa`	The index of the age at DX 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.

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.

Tom Radivoyevitch (radivot@ccf.org)

SEERaBomb-package, getE,seerSet

SEERaBomb documentation built on Dec. 16, 2019, 1:21 a.m.