PALMO (version 0.1.2)

multimodalView: multimodalView Function

Description

This function allows to visualize the multimodal view genes of interest by celltypes/ groups defined by use

Usage

multimodalView(
  modality1,
  modality2,
  group_oi = NULL,
  geneList,
  colorThreshold = 10,
  group_position = NULL,
  plotHeight = 10,
  titleName = "",
  colorMax = NULL,
  colorscale = FALSE,
  fileName = NULL,
  filePATH = NULL
)

Value

Multimodal plot and data list

Arguments

modality1

Variation or Expression matrix/data frame. Rows represents gene/proteins column represents group:donor (group and donor separated by :)

modality2

Variation or Expression matrix/data frame. Rows represents gene/proteins column represents group:donor (group and donor separated by :)

group_oi

Optional, User-defined groups to consider and order

geneList

Genes of interest to explore

colorThreshold

User-defined color threshold in color space

group_position

Default 1, use 2 when columns are donor:group format

plotHeight

User-defined Plot size (in)

titleName

Title of the plot

colorMax

Maximum CV value in heatplot ("max", numeric or NULL)

colorscale

Show color scale, TRUE or FALSE (default).

fileName

User defined filename

filePATH

User-defined output directory PATH to save result

Examples

if (FALSE) {
multimodalView(modality1=scrna_cv_res, modality2=scatac_cv_res, geneList)
}