write_fusion_reference {chimeraviz} | R Documentation |
This function will write the fusion sequence to a fasta file, using Biostring::writeXStringSet() .
write_fusion_reference(fusion, filename)
fusion |
The Fusion object we want to create a fasta file from. |
filename |
The filename to write to. |
Writes the fusion junction sequence to the given filename.
# Import the filtered defuse results defuse833keFiltered <- system.file( "extdata", "defuse_833ke_results.filtered.tsv", package="chimeraviz") fusions <- import_defuse(defuse833keFiltered, "hg19", 1) # Get a specific fusion fusion <- get_fusion_by_id(fusions, 5267) # Create temporary file to hold the fusion sequence fastaFileOut <- tempfile(pattern = "fusionSequence", tmpdir = tempdir()) # Write fusion sequence to file write_fusion_reference(fusion, fastaFileOut)