$.cytoFrame |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
analysePlate |
Apply a statistic to the data from each well in a plate |
as.all |
Coercion without introduction of NAs |
barploterrbar |
Barplot with error bars. |
colnames,cytoFrame-method |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
colnames,cytoSet-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
colnames<-,cytoFrame-method |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
colnames<-,cytoSet-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
combineFrames |
Combine the cytoFrames within a cytoSet according to some grouping factor |
csApply |
Apply a function over the intensities in a cytoSet |
cytoFrame-class |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
cytoSet-class |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
ddCt |
Apply the ddCt method for a given data set |
description,cytoFrame-method |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
description<-,cytoFrame,character-method |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
eListWrite |
Write the eList |
exprs,cytoFrame-method |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
exprs<-,cytoFrame,matrix-method |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
fitNorm2 |
Fit bivariate normal distribution. |
gate.cytoFrame |
Functions to gate cytometry data |
gate.cytoSet |
Functions to gate cytometry data |
gate.matrix |
Functions to gate cytometry data |
getPradaPar |
Set and query global parameters for functions in the prada package |
length,cytoSet-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
pData,cytoSet-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
phenoData,cytoSet-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
phenoData<-,cytoSet,phenoData-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
plot,cytoFrame,missing-method |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
plot.cytoFrameGate |
Visualize Observations within defined Gates |
plot.cytoSetGate |
Visualize Observations within defined Gates |
plot.matrixGate |
Visualize Observations within defined Gates |
plotNorm2 |
Plot fitted bivariate normal distribution. |
plotPlate |
Plot a well statistic in false color representation. |
readCytoSet |
Create a cytoSet object from one or more FCS 3.0 files |
readFCS |
Read an FCS 3.0 file |
readFCSdata |
Auxiliary functions for readFCS |
readFCSgetPar |
Auxiliary functions for readFCS |
readFCSheader |
Auxiliary functions for readFCS |
readFCStext |
Auxiliary functions for readFCS |
readSDM |
Read an SDM file |
removeCensored |
Remove rows that contain censored data |
removeCensored,cytoFrame-method |
Remove rows that contain censored data |
removeCensored,data.frame-method |
Remove rows that contain censored data |
removeCensored,matrix-method |
Remove rows that contain censored data |
setPradaPars |
Set and query global parameters for functions in the prada package |
show,cytoFrame-method |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
show,cytoSet-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
threePanelPlot |
Visualize cytometry data |
thresholds |
Discretize a two-dimensional data space into quadrants by applying thresholds |
[,cytoFrame-method |
'cytoFrame': a class for storing observed quantitative properties from a population of cells, for example from a FACS run or from automated microscopy |
[,cytoSet-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
[[,cytoSet-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |
[[<-,cytoSet-method |
'cytoSet': a class for storing raw data from a quantitative cell-based assay |