Returns transposable element families from scSet

Retrieves all available families in the provided scSet that match defined characteristics.

repnames(scSet, pattern = NULL, fixed = FALSE)

Arguments

scSet	scSet object to query.
pattern	Regular expression. Returns only families that match pattern.
fixed	Logical. If TRUE, pattern is matched as is.

Value

Character vector.

See also

createscSet()

Examples

# NOT RUN {
gs <- createscSet(genome = Hsapiens, tes = te_annotation_df)
families <- names(gs, pattern = 'LTR12') # returns all families containing 'LTR12' in their name.

# Using a pattern not found in scSet will suggest similar hits, e.g.:
names(gs, pattern = 'LTR5HS')
# }