destiny-package | Create and plot diffusion maps |
as.data.frame-method | DiffusionMap coercions |
as.ExpressionSet | Convert object to ExpressionSet or read it from a file |
as.ExpressionSet-method | Convert object to ExpressionSet or read it from a file |
colorlegend | Color legend |
cube.helix | Sequential color palette using the cube helix system |
data:guo | Guo at al. mouse embryonic stem cell qPCR data |
data:guo.norm | Guo at al. mouse embryonic stem cell qPCR data |
dataset | DiffusionMap methods |
dataset<- | DiffusionMap methods |
destiny | Create and plot diffusion maps |
DiffusionMap | Create a diffusion map of cells |
DiffusionMap class | Create a diffusion map of cells |
DiffusionMap coercions | DiffusionMap coercions |
DiffusionMap methods | DiffusionMap methods |
DiffusionMap-class | Create a diffusion map of cells |
DiffusionMap-coercions | DiffusionMap coercions |
DiffusionMap-methods | DiffusionMap methods |
dm.predict | Predict new data points using an existing DiffusionMap. The resulting matrix can be used in the plot method for the DiffusionMap |
eigenvalues | DiffusionMap methods |
eigenvalues<- | DiffusionMap methods |
eigenvectors | DiffusionMap methods |
eigenvectors<- | DiffusionMap methods |
ExpressionSet helpers | Convert object to ExpressionSet or read it from a file |
find.dm.k | Find a suitable k |
find.sigmas | Calculate the average dimensionality for m different gaussian kernel widths (sigma). |
fortify.DiffusionMap | DiffusionMap coercions |
guo | Guo at al. mouse embryonic stem cell qPCR data |
guo.norm | Guo at al. mouse embryonic stem cell qPCR data |
lWhich | Logical which |
optimal.sigma | Sigmas Object |
optimal.sigma-method | DiffusionMap methods |
optimal.sigma-method | Sigmas Object |
plot-method | 3D or 2D plot of diffusion map |
plot-method | Plot Sigmas object |
plot.DiffusionMap | 3D or 2D plot of diffusion map |
plot.Sigmas | Plot Sigmas object |
print-method | DiffusionMap methods |
print-method | Sigmas Object |
read.ExpressionSet | Convert object to ExpressionSet or read it from a file |
show-method | DiffusionMap methods |
show-method | Sigmas Object |
Sigmas | Sigmas Object |
sigmas | DiffusionMap methods |
Sigmas class | Sigmas Object |
Sigmas-class | Sigmas Object |
Sigmas-methods | Sigmas Object |
sigmas<- | DiffusionMap methods |
updateObject-method | Update old DiffusionMaps to a newer version |
values | DiffusionMap methods |
values<- | DiffusionMap methods |
vectors | DiffusionMap methods |
vectors<- | DiffusionMap methods |