Description Usage Arguments Value Objects from the Class Slots Extends Methods Author(s) References See Also
The CobsFitClass
class represents models that were fit with the
nonparametric model.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 | ## S4 method for signature 'CobsFitClass'
fitSeries(object,
diln,
intensity,
est.conc,
method="nls",
silent=TRUE,
trace=FALSE,
...)
## S4 method for signature 'CobsFitClass'
fitSlide(object,
conc,
intensity,
...)
## S4 method for signature 'CobsFitClass'
fitted(object, conc, ...)
## S4 method for signature 'CobsFitClass'
trimConc(object,
conc,
intensity,
design,
trimLevel,
...)
|
object |
object of class |
diln |
numeric vector of dilutions for series to be fit |
intensity |
numeric vector of observed intensities for series to be fit |
est.conc |
numeric estimated concentration for dilution = 0 |
method |
character string specifying regression method to use to fit the series |
silent |
logical scalar. If |
trace |
logical scalar. Used in |
conc |
numeric vector containing estimates of the log concentration for each dilution series |
design |
object of class |
trimLevel |
numeric scalar multiplied to MAD |
... |
extra arguments for generic routines |
The fitted
method returns a numeric vector.
Objects are created internally by calls to the methods
fitSlide
or RPPAFit
.
model
:object of class cobs
summarizing nonparametric
fit
lambda
:numeric
Class FitClass
, directly.
signature(object = "CobsFitClass")
:
Finds the concentration for an individual dilution series given the
curve fit for the slide.
signature(object = "CobsFitClass")
:
Uses the concentration and intensity series for an entire slide to
fit a curve for the slide of intensity = f(conc).
signature(object = "CobsFitClass")
:
Extracts fitted values of the model.
signature(object = "CobsFitClass")
:
Returns concentration and intensity cutoffs for the model.
P. Roebuck proebuck@mdanderson.org
Hu J, He X, Baggerly KA, Coombes KR, Hennessy BT, Mills GB.
"Non-parametric Quantification of Protein Lysate Arrays"
Bioinformatics (2007) 23(15): 1986-1994.
https://academic.oup.com/bioinformatics/article/23/15/1986/205819/Non-parametric-quantification-of-protein-lysate
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