Class RcsbFvChromosome

Private IDEOGRAM_DIV_ID

Private TITLE_CHR_DIV_ID

Private TITLE_CHR_REGION_ID

Private alignmentCollectorQueue

Private batchSize

Private beginView

Private Readonly buildSubject

Private chrSet

Private completeTasks

Private currentDisplayedChrId

Private elementSelectId

Private endView

Private entityBegin

Private entityEnd

Private entityId

Private featuresConfigData

Private maxRange

Private minRange

Private nTasks

Private nonExonConfigData

Private pdbEntityTrack

Private Readonly targetAlignmentList

Private targetCoverages

Private targetFilterFlag

Private Readonly targetsSubject

Private addSequences

• addSequences(lightTracks, reference): void

• Parameters

  • lightTracks: RcsbFvRowConfigInterface[]

  • reference: SequenceReference

  Returns void

Private buildChromosomeFv

• buildChromosomeFv(chrId): Promise<void>

• Parameters

  • chrId: string

  Returns Promise<void>

Private buildFullGenomeRangeFv

• buildFullGenomeRangeFv(chrId): void

• Parameters

  • chrId: string

  Returns void

Private buildPdbGenomeFv

• buildPdbGenomeFv(pdbEntityId, chrId?): void

• Parameters

  • pdbEntityId: string

  • Optional chrId: string

  Returns void

Private collectChromosomeAlignments

• collectChromosomeAlignments(chrId, to, range?, index?): void

• Parameters

  • chrId: string

  • to: SequenceReference

  • Optional range: [number, number]

  • Optional index: number

  Returns void

Private collectChromosomeEntityRegion

• collectChromosomeEntityRegion(chrId): void

• Parameters

  • chrId: string

  Returns void

Private collectChromosomeWorkerResults

• collectChromosomeWorkerResults(index, reference, alignment, forcePlot): Promise<void>

• Parameters

  • index: number

  • reference: SequenceReference

  • alignment: AlignmentResponse

  • forcePlot: boolean

  Returns Promise<void>

Private collectExons

• collectExons(targetAlignmentList, member, blockColor, flagTitleColor, reference, chrId?): RcsbFvRowConfigInterface[]

• Parameters

  • targetAlignmentList: TargetAlignment[]

  • member: "query" | "target"

  • blockColor: string

  • flagTitleColor: string

  • reference: SequenceReference

  • Optional chrId: string

  Returns RcsbFvRowConfigInterface[]

Private collectPdbWorkerResults

• collectPdbWorkerResults(ar, pdbEntityId, chrId?): Promise<void>

• Parameters

  • ar: AlignmentResponse

  • pdbEntityId: string

  • Optional chrId: string

  Returns Promise<void>

Private genomeSequenceTracks

• genomeSequenceTracks(chrId): void

• Parameters

  • chrId: string

  Returns void

Private mergeExonTracks

• mergeExonTracks(tracks, reference): RcsbFvRowConfigInterface[]

• Parameters

  • tracks: RcsbFvRowConfigInterface[]

  • reference: SequenceReference

  Returns RcsbFvRowConfigInterface[]

Private normalizeTargetAlignment

• normalizeTargetAlignment(targetAlignment, member): RcsbFvTrackDataElementInterface

• Parameters

  • targetAlignment: TargetAlignment

  • member: "query" | "target"

  Returns RcsbFvTrackDataElementInterface

Private plot

• plot(): Promise<void>

• Returns Promise<void>

Private plotChromosomeTitle

• plotChromosomeTitle(chrId): void

• Parameters

  • chrId: string

  Returns void

Private plotIdeogram

• plotIdeogram(ncbiChrResult): void

• Parameters

  • ncbiChrResult: ChromosomeMetadataInterface

  Returns void

Private setDisplayView

• setDisplayView(): Promise<void>

• Returns Promise<void>

Private simplifyExonTracks

• simplifyExonTracks(tracks, member, reference): RcsbFvTrackData<{
      [k: string]: any;
  }>[]

• Parameters

  • tracks: RcsbFvTrackData<{
        [k: string]: any;
    }>[]

  • member: "query" | "target"

  • reference: SequenceReference

  Returns RcsbFvTrackData<{
      [k: string]: any;
  }>[]

Private updateChromosomeTitleRegion

• updateChromosomeTitleRegion(): void

• Returns void