deepblue_select_column: select column
In MPIIComputationalEpigenetics/DeepBlue-R: DeepBlueR

Description Usage Arguments Value See Also Examples

A utility command that creates a list of experiments in which a specific column is selected. Such a list is needed as input for deepblue_score_matrix.

1 2	deepblue_select_column(experiments, column, user_key = deepblue_options("user_key"))

`experiments`	- A data frame with experiments obtained from deepblue_list_experiments
`column`	- The name of the column that is extracted from each experiment file
`user_key`	- A string (users token key)

A list of experiments with the selected column

deepblue_score_matrix

deepblue_list_experiments

Other Utilities for information processing: deepblue_diff

blueprint_DNA_meth <- deepblue_list_experiments(
genome = "GRCh38",
epigenetic_mark = "DNA Methylation",
technique = "Bisulfite-Seq",
project = "BLUEPRINT EPIGENOME")

blueprint_DNA_meth <- blueprint_DNA_meth[grep("bs_call",
 deepblue_extract_names(blueprint_DNA_meth)),]

exp_columns <- deepblue_select_column(blueprint_DNA_meth, "VALUE")