import_oncofuse {chimeraviz} | R Documentation |
A function that imports the results from a oncofuse run, typically from a results.filtered.tsv file, into a list of Fusion objects.
import_oncofuse(filename, genome_version, limit)
filename |
Filename for the oncofuse results .tsv file. |
genome_version |
Which genome was used in mapping (hg19, hg38, etc.). |
limit |
A limit on how many lines to read. |
This import function was contributed by Lavinia G, ref https://github.com/stianlagstad/chimeraviz/issues/47#issuecomment-409773158
A list of Fusion objects.
oncofuse833ke <- system.file( "extdata", "oncofuse.outfile", package="chimeraviz") fusions <- import_oncofuse(oncofuse833ke, "hg19", 3) # This should import a list of 3 fusions described in Fusion objects.