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FeatureTranscripts

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

The feature display's transcripts: which children read as a gene's isoforms, and the order they rank in. field names the attribute holding a curated tag and sort the tag values that rank first, in order, as a facet sorts; the isoforms past the list follow by coding length. The first-ranked is the one transcript geneGlyphMode: 'representative' draws, and the first kept when auto caps a gene at the rows the track has.

Example usage

{
  type: 'LinearBasicDisplay',
  transcripts: { field: 'tag', sort: ['MANE Select', 'Ensembl_canonical'] },
}

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.

SlotDescription
types
stringArray = 
['mRNA', 'transcript', 'primary_transcript', 'V_gene_segment', 'C_gene_segment', 'D_gene_segment', 'J_gene_segment']
Types the geneLike filter field counts beside every gene, transcript and RNA type, and the fallback for recognizing a childless transcript as one of a gene's isoforms. Not the isoform test: keying that off this list dropped every lnc_RNA and misc_RNA isoform NCBI hangs off a gene.
field
string = 'tag'		The attribute holding an isoform's curated "this one represents the gene" tag.
sort
stringArray = 
['MANE Select', 'MANE_Select', 'RefSeq Select', 'Ensembl_canonical', 'MANE Plus Clinical', 'MANE_Plus_Clinical']
The values of field that rank an isoform first, in order.