mavis.tools
mavis.tools.convert_tool_output()
Reads output from a given SV caller and converts to a set of MAVIS breakpoint pairs. Also collapses duplicates
def convert_tool_output(
fnames,
file_type=SUPPORTED_TOOL.MAVIS,
stranded=False,
log=DEVNULL,
collapse=True,
assume_no_untemplated=True,
):
Args
- fnames
- file_type
- stranded
- log
- collapse
- assume_no_untemplated