Class MLVBedTrack

Hierarchy (View Summary)

Constructors

constructor

Properties

bottom color_function config feature_source filter_function top custom_tracks

Methods

_setFeatureSource addExtraControls calculateFeatureCoordinates drawFeatures drawMessage drawScale getConfig getCurrentFeatures getFeatureAt getFeatures getSettings renderFeature renderFeatureLabel setColorFunction setConfig setConfigAttribute setFilterFunction calculateLabel getTrack getTypeFromURL parseConfig

Constructors

constructor

Properties

bottom

bottom: undefined | number

color_function

color_function: any

config

config: any

feature_source

feature_source: undefined | TabixBedFeatureSource

filter_function

filter_function: any

top

top: undefined | number

Staticcustom_tracks

custom_tracks: {}

Methods

_setFeatureSource

addExtraControls

calculateFeatureCoordinates

  • calculateFeatureCoordinates(
        feature: any,
        bpStart: any,
        xScale: any,
    ): { pw: number; px: number; px1: number }

  • Parameters

    • feature: any
    • bpStart: any
    • xScale: any

    Returns { pw: number; px: number; px1: number }

drawFeatures

drawMessage

drawScale

getConfig

getCurrentFeatures

  • getCurrentFeatures(chr: any, start: any, end: any): any

  • Parameters

    • chr: any
    • start: any
    • end: any

    Returns any

getFeatureAt

getFeatures

  • getFeatures(
        chr: string,
        bpStart: integer,
        bpEnd: integer,
        force: boolean,
        data: Object,
    ): any

  • Retrieves the features requested, the default is just to get the features from the feature source

    Parameters

    • chr: string

      The chromosome

    • bpStart: integer

      The start of the range from which to obtain features

    • bpEnd: integer

      The end of the range from which to obtain features

    • force: boolean

      If true then cached features should not be used but fresh features retrieved

    • data: Object

      contains bp ber pixel and width of the canvas

    Returns any

getSettings

  • getSettings(
        panel: any,
    ): (
        | {
            current_value: any;
            func: (x: any) => void;
            label: string;
            max?: undefined;
            min?: undefined;
            type: string;
        }
        | {
            current_value: any;
            func: (x: any) => void;
            label: string;
            max: number;
            min: number;
            type: string;
        }
        | {
            current_value?: undefined;
            func: () => void;
            label: string;
            max?: undefined;
            min?: undefined;
            type: string;
        }
    )[]

  • Parameters

    • panel: any

    Returns (
        | {
            current_value: any;
            func: (x: any) => void;
            label: string;
            max?: undefined;
            min?: undefined;
            type: string;
        }
        | {
            current_value: any;
            func: (x: any) => void;
            label: string;
            max: number;
            min: number;
            type: string;
        }
        | {
            current_value?: undefined;
            func: () => void;
            label: string;
            max?: undefined;
            min?: undefined;
            type: string;
        }
    )[]

renderFeature

  • renderFeature(
        feature: any,
        coord: any,
        ctx: any,
        info: any,
        defaultColor: any,
    ): void

  • Renders the feature to the canvas

    Parameters

    • feature: any

      The feature itself

    • coord: any

      An object containing information on where to draw the feature px1,px2 the left and right pixels - pw - the width py the top, h - the height

    • ctx: any

      The context to draw the feature

    • info: any

      An object containing information about the genomic location bpStart.bpPerPixel and pixelWidth

    • defaultColor: any

    Returns void

renderFeatureLabel

  • renderFeatureLabel(
        ctx: any,
        feature: any,
        featureX: any,
        featureX1: any,
        featureY: any,
        windowX: any,
        windowX1: any,
        defaultColor: any,
    ): void

  • Parameters

    • ctx: any

      the canvas 2d context

    • feature: any
    • featureX: any

      feature start x-coordinate

    • featureX1: any

      feature end x-coordinate

    • featureY: any

      feature y-coordinate

    • windowX: any

      visible window start x-coordinate

    • windowX1: any

      visible window end x-coordinate

    • defaultColor: any

    Returns void

setColorFunction

setConfig

setConfigAttribute

setFilterFunction

StaticcalculateLabel

StaticgetTrack

StaticgetTypeFromURL

StaticparseConfig

Settings

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