list2edges: Convert list to edge matrix

In ontoFAST: Interactive Annotation of Characters with Biological Ontologies

Description

Takes a list of character annotations and creates an edge matrix comprising two columns: from and to. The list to table conversion can be done using ldply function from plyr package: plyr::ldply(list, rbind).

Usage

list2edges(annotated.char.list, col_order_inverse = FALSE)

Arguments

annotated.char.list	Character list with ontology annotations.
col_order_inverse	The default creates the first columns consisting if character IDs and the second columns consisting of ontology annatotaions. The inverse order changes the columns order.

Value

Two-column matrix.

Examples

annot_list<-list(`CHAR:1`=c("HAO:0000933", "HAO:0000958"), `CHAR:2`=c("HAO:0000833", "HAO:0000258"))
list2edges(annot_list)
# use plyr package and run
plyr::ldply(annot_list, rbind)

ontoFAST documentation built on April 29, 2021, 9:06 a.m.