extractions: Extraction methods

In theislab/destiny: Creates diffusion maps

Extraction methods

Description

Extract common information from objects. Apart from the input data's branches, you can extract diffusion components via $DCx. From DPT objects, you can also extract the branch label via $Branch, or the diffusion pseudo time for a numbered cell via $DPTx.

Usage

## S4 method for signature 'DiffusionMap'
names(x)

## S4 method for signature 'DPT'
names(x)

## S4 method for signature 'DiffusionMap,character,missing'
x[[i, j, ...]]

## S4 method for signature 'DPT,character,missing'
x[[i, j, ...]]

## S4 method for signature 'DiffusionMap'
x$name

## S4 method for signature 'DPT'
x$name

Arguments

x	DiffusionMap or DPT object
i, name	Name of a diffusion component 'DCx', 'DPTx', 'Branch' or column from the data
j	N/A
...	ignored

Value

The names or data row, see respective generics.

See Also

Extract, names for the generics. DiffusionMap accession methods, DiffusionMap methods, Coercion methods for more

Examples

data(guo)
dm <- DiffusionMap(guo)
dm$DC1        # A diffusion component
dm$Actb       # A gene expression vector
dm$num_cells  # Phenotype metadata

dpt <- DPT(dm)
dm$Branch
dm$DPT1

theislab/destiny documentation built on Jan. 27, 2024, 9:57 p.m.