fx.add_factors_to_redDim_df: Adding color values to a data.frame for plotting reduced...
In evanbiederstedt/sandbox: The functions

Description Usage Arguments Details Value See Also

Adding color values to a data.frame for plotting reduced dimensions

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fx.add_factors_to_redDim_df(object, df_to_plot, color_by = NULL,
  shape_by = NULL, size_by = NULL, circle_by = NULL,
  exprs_values = NULL)

`object`	`SCE` or `SCESet` object
`color_by`	entry of either `colData(object)`, `rowData(object)`, `rownames(object)`, which will be used to assign either discrete or continous color schemes. Alternatively, you can supply a `list` with a label stored in `list$title` and values stored in `list$result` (`result` should be as long as `dim(object)[2]`. Default: `NULL`
`shape_by`	default: `NULL`
`size_by`	default: `NULL`
`circle_by`	Used for encircling points of interest; default: `NULL`
`exprs_values`	The name of the expression values which will be used for the legend of the plot.
`dt_to_plot`	`data.frame` fit for ggplot2-based routines

Basically a wrapper around fx.choose_vis_values_sce that already makes smart assumptions about reasonable checks for any of the factors specified via size_by, color_by, shape_by. This function will add columns for those factors so that they can be conveniently used for faceting etc. using ggplot2.

data.frame fit for plotting with ggplot2 with additional columns for color, shape and size

fx.choose_vis_values_sce

evanbiederstedt/sandbox documentation built on May 26, 2019, 12:31 p.m.