One of slref or anl need to be specified. The conversion from SAS code in filters dataset may not work in all cases. In case of failure a sensible error message should be returned.
Usage
stream_filter(
slref = NULL,
anl = NULL,
filters,
suffix,
slref_keep = NULL,
usubjid = "USUBJID"
)Arguments
- slref
The subject level data frame (typically ASL.sas7bdat on BCE)
- anl
The analysis data frame (e.g. ATE.sas7bdat on BCE)
- filters
The name of the filters dataset (typically __filters.sas7bdat on BCE)
- suffix
The suffix to apply in quotes (e.g. "ITT_PFSINV")
- slref_keep
Variables to keep from slref (e.g. c("REGION", "SEX"))
- usubjid
The unique subject identifier variable in quotes (e.g. "USUBJID")
Examples
library(scda)
ASL <- synthetic_cdisc_data("latest")$adsl
ATE <- synthetic_cdisc_data("latest")$adaette
filters <- as.data.frame(rbind(
c(ID = "IT", FLTTARGET = "SLREF", FLTWHERE = "where 1 eq 1"),
c(ID = "BIO", FLTTARGET = "SLREF", FLTWHERE = "where BMRKR1 ge 4.3"),
c(ID = "M", FLTTARGET = "SLREF", FLTWHERE = "where SEX eq 'M'"),
c(ID = "PFS", FLTTARGET = "ANL", FLTWHERE = "where PARAMCD eq 'PFS'"),
c(ID = "OS", FLTTARGET = "ANL", FLTWHERE = "where PARAMCD eq 'OS'")
))
ANL <- stream_filter(
slref = ASL,
anl = ATE,
suffix = "IT_PFS_BIO",
filters = filters
)
#> Warning: `filter_()` was deprecated in dplyr 0.7.0.
#> Please use `filter()` instead.
#> See vignette('programming') for more help
#>
#> Filter IT applied
#> SAS code: where 1 eq 1
#> was converted to
#> R code: 1 == 1
#> 400 of 400 observations selected from SLREF
#>
#> Filter PFS applied
#> SAS code: where PARAMCD eq 'PFS'
#> was converted to
#> R code: PARAMCD == 'PFS'
#> 0 of 3600 observations selected from ANL
#>
#> Filter BIO applied
#> SAS code: where BMRKR1 ge 4.3
#> was converted to
#> R code: BMRKR1 >= 4.3
#> 231 of 400 observations selected from SLREF
#> Warning: `transmute_()` was deprecated in dplyr 0.7.0.
#> Please use `transmute()` instead.
#> See vignette('programming') for more help
#>
#> Suffix IT_PFS_BIO was applied
#> 0 of 3600 observations selected from ANL