Description Usage Arguments Value Examples
Functions could be used to add/delete user's custom compound annotations
from the annotation SQLite database.
The added custom compound annotation table should contains a column named as
chembl_id
that represents the ChEMBL ids of the added compounds.
The listAnnot
function lists the available annotation
resources in the SQLite annotation database.
The defaultAnnot
function sets the annotation SQLite
database to the default one by deleting the existing one and re-downloading
from AnnotationHub.
1 2 3 4 5 6 7 | addCustomAnnot(annot_tb, annot_name)
deleteAnnot(annot_name)
listAnnot()
defaultAnnot()
|
annot_tb |
data.frame representing the custom annotation table, Note, it should contains a 'chembl_id' column representing the compound ChEMBL ids |
annot_name |
character(1), user defined name of the annotation table |
character vector of names of the annotation tables in the SQLite DB
character(1), path to the annotation SQLite database
1 2 3 4 5 6 7 8 9 10 | chembl_id <- c("CHEMBL1000309", "CHEMBL100014", "CHEMBL10",
"CHEMBL100", "CHEMBL1000", NA)
annot_tb <- data.frame(compound_name=paste0("name", 1:6),
chembl_id=chembl_id,
feature1=paste0("f", 1:6),
feature2=rnorm(6))
addCustomAnnot(annot_tb, annot_name="mycustom3")
deleteAnnot("mycustom3")
annot_names <- listAnnot()
# defaultAnnot()
|
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