BASiCS_ShowFit {BASiCS} | R Documentation |
Plotting the trend after Bayesian regression using a
BASiCS_Chain
object
BASiCS_ShowFit( object, xlab = "log(mu)", ylab = "log(delta)", pch = 16, smooth = TRUE, variance = 1.2, colour = "dark blue", markExcludedGenes = TRUE, GenesSel = NULL, colourGenesSel = "dark red", Uncertainty = TRUE )
object |
an object of class |
xlab |
As in |
ylab |
As in |
pch |
As in |
smooth |
Logical to indicate wether the smoothScatter function is used
to plot the scatter plot. Default value |
variance |
Variance used to build GRBFs for regression. Default value
|
colour |
colour used to denote genes within the scatterplot. Only used
when |
markExcludedGenes |
Whether or not lowly expressed genes that were
excluded from the regression fit are included in the scatterplot.
Default value |
GenesSel |
Vector of gene names to be highlighted in the scatterplot.
Only used when |
colourGenesSel |
colour used to denote the genes listed in
|
Uncertainty |
logical indicator. If true, statistical uncertainty around the regression fit is shown in the plot. |
A ggplot2 object
Nils Eling eling@ebi.ac.uk
Catalina Vallejos cnvallej@uc.cl
Eling et al (2018). Cell Systems https://doi.org/10.1016/j.cels.2018.06.011
data(ChainRNAReg) BASiCS_ShowFit(ChainRNAReg)