viola.Vcf.to_bedpe

Vcf.to_bedpe(file_or_buf: str, custom_infonames: Iterable[str] = [], add_filters: bool = False, add_formats: bool = False, confidence_intervals: bool = False)

to_bedpe_like(file_or_buf, custom_infonames=[], add_filters, add_formats, confidence_intervals: bool=False) Return a BEDPE file.

Parameters

• file_or_buf (str) – File path to save the VCF file.

• custom_infonames (list-like[str]) – The table names of INFOs to append.

• add_filters (bool, default False) – sth

• add_formats (bool, default False) – sth

• confidence_intervals (bool, default False) – Whether or not to consider confidence intervals of the breakpoints. If True, confidence intervals for each breakpoint are represented by [start1, end1) and [start2, end2), respectively. Otherwise, breakpoints are represented by a single-nucleotide resolution.