LGVSyntenySort
Auto-generated from the config schema in the source — see the config guide for concepts. Provided by the linear-comparative-view plugin. View source.
Example usage
{ type: 'LGVSyntenyDisplay', sort: 'position' }The LGVSyntenyDisplay's sort setting: the
AlignmentsSort object with type defaulting to
length, so big syntenic blocks cluster at the top instead of interleaving
with small ones.
Related links
- Base config: AlignmentsSort
Config slots
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.
| Slot | Description |
|---|---|
typestringEnum = 'length' | position, length, spliced, split or svSignal order the whole window; strand, basePair, mapq, pairOrientation, tag, insertion, softclip or hardclip rank the reads over the column at pos |
| Inherited from AlignmentsSort | 4 slots |
posmaybeNumber | a column sort's 0-based position |
refNamemaybeString | a column sort's reference sequence |
tagmaybeString | the SAM tag a tag sort ranks by |
withinmaybeNumber | how many bases either side of pos an insertion, softclip or hardclip sort still ranks a mark |