deepblue_find_motif {DeepBlueR} | R Documentation |
Find genomic regions based on a given motif that appears in the genomic sequence.
deepblue_find_motif(motif = NULL, genome = NULL, chromosomes = NULL, start = NULL, end = NULL, overlap = NULL, user_key = deepblue_options("user_key"))
motif |
- A string (motif (PERL regular expression)) |
genome |
- A string (the target genome) |
chromosomes |
- A string or a vector of string (chromosome name(s)) |
start |
- A int (minimum start region) |
end |
- A int (maximum end region) |
overlap |
- A boolean (if the matching should do overlap search) |
user_key |
- A string (users token key) |
id - A string (id of the annotation that contains the positions of the given motif)
Other Inserting and listing annotations: deepblue_list_annotations
deepblue_find_motif(motif = "C[GT]+C", chromosomes=c("chr11", "chr12"), genome = "hg19", overlap = FALSE)