MafMismatches

Auto-generated from the config schema in the source — see the config guide for concepts. Provided by the maf plugin. View source.

The MAF display's alignments.mismatches layer: how each species differs from the reference, as each differing base in its own color with its letter, insertion markers and deletion counts, drawn over whatever encoding.color fills the rows with. Alignments' pileup.mismatches.

Example usage#

{ type: 'LinearMafDisplay', alignments: { mismatches: { show: false } } }

Config slots#

A setting written to it names members one by one: a member left out stays as it is, and null resets one. Slot types (fileLocation, frozen, ...) are explained in the config slot types reference. Slots a base configuration contributes are listed here too, so this table is the whole surface.

Related links#

• User guide: MAF track