Plots for OPLS-DA

Visualization for results from glystats::gly_oplsda() (glystats_oplsda_res object). Possible types of plots:

• "scores" (default): Plot scores for samples.

• "loadings": Plot loadings for variables.

• "vip": Plot VIP scores for variables.

• "variance": Plot explained variance for each component.

• "s-plot": Plot the correlation between p1 and pcorr1.

Usage

# S3 method for class 'glystats_oplsda_res'
autoplot(
  object,
  type = "scores",
  y_type = "o1",
  groups = NULL,
  group_col = NULL,
  ...
)

Arguments

object

A glystats_oplsda_res object.

type

The type of plot, one of "loadings", "scores", "vip", "variance", or "s-plot". Defaults to "scores".

y_type

What to plot on the y-axis when type is "scores" or "loadings". Either "p2" or "o1". Defaults to "o1".

groups

A factor or character vector specifying group membership for each sample. If provided, the plot will be colored by group. Only applicable to "scores" and "loadings" types.

group_col

A character string specifying where to find the group information. If you uses glystats::gly_oplsda() on a glyexp::experiment() to get the result, sample information has already been added to the result. In this case, you can specify the column name in the sample information tibble to be used for coloring. If not provided, this function will try "group".

...

Ignored.

Value

A ggplot object.