constants module

mavis.pairing.constants.DEFAULTS = MavisNamespace(contig_call_distance=0, flanking_call_distance=0, spanning_call_distance=5, split_call_distance=10)

MavisNamespace – default settings for the pairing module

contig_call_distance:

the maximum distance allowed between breakpoint pairs (called by contig) in order for them to pair

flanking_call_distance:

the maximum distance allowed between breakpoint pairs (called by flanking pairs) in order for them to pair

spanning_call_distance:

the maximum distance allowed between breakpoint pairs (called by spanning reads) in order for them to pair

split_call_distance:

the maximum distance allowed between breakpoint pairs (called by split reads) in order for them to pair