import_fusionmap: Import results from a FusionMap run into a list of Fusion...
In chimeraviz: Visualization tools for gene fusions

Description Usage Arguments Value Examples

A function that imports the results from a FusionMap run, typically from a InputFastq.FusionReport.txt file, into a list of Fusion objects.

1	import_fusionmap(filename, genome_version, limit)

`filename`	Filename for the FusionMap PairedEndFusionReport.txt results file.
`genome_version`	Which genome was used in mapping (hg19, hg38, etc.).
`limit`	A limit on how many lines to read.

A list of Fusion objects.

fusionmapData <- system.file(
  "extdata",
  "FusionMap_01_TestDataset_InputFastq.FusionReport.txt",
  package = "chimeraviz")
fusions <- import_fusionmap(fusionmapData, "hg19", 3)
# This should import a list of 3 fusions described in Fusion objects.