relabu_heatmap {animalcules} | R Documentation

## Plot heatmap of sample level counts in logcpm

### Description

Plot heatmap of sample level counts in logcpm

### Usage

    relabu_heatmap(
      MAE,
      tax_level,
      sort_by = c("nosort", "conditions", "organisms", "alphabetically"),
      sample_conditions = c(),
      isolate_organisms = c(),
      isolate_samples = c(),
      discard_samples = c(),
      log_cpm = TRUE
    )

### Arguments

`MAE` | A multi-assay experiment object
`tax_level` | The taxon level used for organisms
`sort_by` | Sort bars by one of c('nosort', 'conditions', 'organisms', 'alphabetically')
`sample_conditions` | Plot conditions e.g. c('SEX', 'AGE')
`isolate_organisms` | Isolate specific organisms e.g. c('Hepacivirus')
`isolate_samples` | Isolate specific samples e.g. c('SAM_01', 'SAM_02')
`discard_samples` | Discard specific samples e.g. c('SAM_01', 'SAM_02')
`log_cpm` | Convert counts to logcpm

### Value

A plotly object

### Examples

    data_dir = system.file('extdata/MAE.rds', package = 'animalcules')
    toy_data <- readRDS(data_dir)
    p <- relabu_heatmap(toy_data,
                       tax_level='genus',
                       sort_by='conditions',
                       sample_conditions=c('SEX', 'AGE'))
    p

[Package animalcules version 1.8.1 Index]