I have a class that contains a dataframe where the columns are factors (from package phyloseq). It looks like that:
> str(a)
'data.frame': 124 obs. of 21 variables:
Formal class 'sample_data' [package "phyloseq"] with 4 slots
..@ .Data :List of 21
.. ..$ : Factor w/ 2 levels "L25","L53": 2 2 2 2 2 2 2 2 1 1 ...
.. ..$ : Factor w/ 1 level "feces metagenome": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 1 level "none": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 1 level "not applicable": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 1 level "not applicable": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 1 level "feces": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 2 levels "Germany:Berlin",..: 2 2 2 2 2 2 2 2 1 1 ...
.. ..$ : Factor w/ 1 level "Mus musculus": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 1 level "not applicable": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 1 level "none": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 1 level "none": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 1 level "none": 1 1 1 1 1 1 1 1 1 1 ...
.. ..$ : Factor w/ 3 levels "female","male",..: 1 1 1 1 2 2 1 1 3 3 ...
..@ names : chr "Library" "Organism" "Collection_date" "Env_biome" ...
..@ row.names: chr "285L53" "286L53" "287L53" "288L53" ...
..@ .S3Class : chr "data.frame"
I can view the data in the console without problem but would like to inspect it in the data viewer. However, if I try to do that I only get a table that shows the column names, type of the column, which is "factor", and the levels of said factor, like this
Name Type Value
a List[124x21(phyloseq::sample_data) A data.frame with 124 rows and 21 columns
Library factor Factor with 2 levels "L25", "L53"
Organism factor Factor with 1 level: "feces Metagenome"
etc.
I am somewhat new to R and have tried the following:
View(a@.Data)
View(a)
View(a@.Data[])
I suspect I lack some knowledge in S4 classes and their syntax, can you give me a hint how I display the actual data in Data viewer?
Firstly try to change the object to dataframe and then apply View function
View(as.data.frame(a@.Data))