adat-helpers | R Documentation |
Retrieve elements of the HEADER
attribute of a soma_adat
object:
getAdatVersion()
determines the the ADAT version
number from a parsed ADAT header.
getSomaScanVersion()
determines the original SomaScan assay version
that generated RFU measurements within a soma_adat
object.
checkSomaScanVersion()
determines if the version of
is a recognized version of SomaScan.
Table of SomaScan assay versions:
Version | Commercial Name | Size |
V4 | 5k | 5284 |
v4.1 | 7k | 7596 |
v5.0 | 11k | 11083 |
getSignalSpace()
determines the current signal space of
the RFU values, which may differ from the original SomaScan
signal space if the data have been lifted. See lift_adat()
and
vignette("lifting-and-bridging", package = "SomaDataIO")
.
getSomaScanLiftCCC()
accesses the lifting Concordance Correlation
Coefficients between various SomaScan versions. For more about
CCC metrics see lift_adat()
.
getAdatVersion(x)
getSomaScanVersion(adat)
getSignalSpace(adat)
checkSomaScanVersion(ver)
getSomaScanLiftCCC(matrix = c("plasma", "serum"))
x |
Either a |
adat |
A |
ver |
|
matrix |
Character. A string of (usually) either
|
getAdatVersion() |
The key-value of the |
getSomaScanVersion() |
The key-value of the |
getSignalSpace() |
The key-value of the |
checkSomaScanVersion() |
Returns |
getSomaScanLiftCCC() |
Returns a tibble of either the
|
Stu Field
Lin, Lawrence I-Kuei. 1989. A Concordance Correlation Coefficient to Evaluate Reproducibility. Biometrics. 45:255-268.
getAdatVersion(example_data)
attr(example_data, "Header.Meta")$HEADER$Version <- "99.9"
getAdatVersion(example_data)
ver <- getSomaScanVersion(example_data)
ver
rfu_space <- getSignalSpace(example_data)
rfu_space
is.null(checkSomaScanVersion(ver))
# plasma (default)
getSomaScanLiftCCC()
# serum
getSomaScanLiftCCC("serum")
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