event-matrix

Event Matrix

Event Matrix is an instrument for the visual representation of multidimensional data, inspired by the earlier project OncoGrid. Initially developed to meet the needs of bioinformaticians, it helps in demonstrating the relationships between genes, donors, and mutations in the genome. It's also well-suited for displaying any three-dimensional (and potentially four-dimensional) data matrices.

Installation & Usage

• Install dependencies:

  npm install event-matrix
  

• Import EventMatrix in your project:

  import EventMatrix from 'event-matrix';
  

• Set up options:

  const eventMatrix = new EventMatrix({
    element: '#event-matrix', // HTML ID for mounting the component
    columns, // Columns of your data grid
    rows, // Rows of your data grid
    entries, // Entries/events that occur in a specific cell
    grid: {
      appearance: this.getCellAppearance,
      width: 1000,
      minCellHeight: 15,
      minCellWidth: 30,
    },
    description: {
      bottom: {
        fields: donorFields,
        appearance: this.getColumnsAppearance,
        fieldHeight: 15,
      },
      side: {
        fields: geneFields,
        appearance: this.getRowsAppearance,
        fieldHeight: 15,
      },
    },
    histogram: {
      top: {
        label: 'Mutation freq.',
      },
      side: {
        label: 'Mutation freq.',
      },
    },
  });
  eventMatrix.setGridLines(this.showGridLines);
  eventMatrix.render();
  

Options

Option	Possible / Default value	Example	Description
element	-	"#event-matrix"	HTML selector for mounting the component
columns	Array / []	[{ "id": "12" }]	Column data
rows	Array / []	[{ "id": "34" }]	Row data
entries	Array / []	[{ "id": "56", "rowId": "12", "columnId": "34" }]	"Events" or "Entries" - data defined by the intersection of a row and a column
grid	Object / false / {}	{ appearance: () => {}, width: 1000, minCellHeight: 15, minCellWidth: 30 }	Options that describe main grid
grid.appearance	Function	(val) => { color: (val.name === "red" ? "#FF0000" : "#00FF00"), opacity: .5 }	Function that determines the cell color and opacity in the main grid
grid.width	Number / 1000	555	You can specify here the main grid total width...
grid.minCellWidth	Number / 30	33.3	...or specify minimum cell width
grid.height	Number / 500	250	You can specify here the main grid total height...
grid.minCellHeight	Number / 15	17	...or specify minimum cell height
description	Object / false / {}	{ bottom: false, side: { fields: [] }}	Options for the bottom and side descriptions blocks
description.side	Object / false / {}	{ fields: [], appearance: () => {}, fieldHeight: 15 }	Options for the side description block (same options for the side block)
description.bottom	Object / false / {}	{ fields: [], appearance: () => {}, fieldHeight: 15 }	Options for the bottom description block (same options for the bottom block)
description.bottom.fields	Array / []	[{ "group": "Clinical Data", "name": "Age", "fieldName": "age", "type": "age"}]	Column or row description fields (the param "group" allows divide fields by groups)
description.bottom.appearance	Function	(trackCell) => { color: (trackCell.type === 'age' ? "#FF0000" : "#00FF00"), opacity: .5 }	Function that determines the cell color and opacity in this description block
description.bottom.fieldHeight	Number / 15	10	Description field height
histogram	Object / false / {}	{ top: false, side: { label: "AAAA" }}	Options that describe top and side histograms
histogram.side	Object / false / {}	{ label: "Mutation freq." }	Options for the side histogram block (same options for the top block)
histogram.top	Object / false / {}	{ label: "Mutation freq." }	Options for the top histogram block (same options for the side block)
histogram.top.label	String / ""	"Mutation freq."	The histogram's label

Events

Event	Params	Description
grid:cell:hover	target: HTMLElement, entryId: string	Hovered over a table cell
grid:cell:click	target: HTMLElement, entryId: string	Clicked on a table cell
grid:out	-	Moved cursor away from the table
grid:label:hover	target: HTMLElement, rowId: string	Hovered over a row label
grid:label:click	target: HTMLElement, rowId: string	Clicked on a row label
grid:crosshair:hover	target: HTMLElement, columnId: string, rowId: string	Hovered over a table cell in zoom mode
grid:crosshair:out	-	Moved cursor away from the table in zoom mode
grid:selection:started	target: HTMLElement, x: number, y: number	Started selecting cells in zoom mode; x, y - coordinates of the selection start
grid:selection:finished	target: HTMLElement, x: number, y: number	Finished selecting cells in zoom mode; x, y - coordinates of the selection end
histogram:hover	target: HTMLElement, domainId: string, type: "rows"/"columns"	Hovered over a histogram column; domainId - id of a row or column, depending on the type of histogram
histogram:click	target: HTMLElement, domainId: string, type: "rows"/"columns"	Clicked on a histogram column; domainId - id of a row or column, depending on the type of histogram
histogram:out	-	Moved cursor away from the histogram
description:legend:hover	target: HTMLElement, group: string	Hovered over an icon in the description block; group - the name of the group
description:legend:out	-	Moved cursor away from an icon in the description block
description:cell:hover	target: HTMLElement, domainId: string, type: "rows"/"columns", field: string	Hovered over a cell in the description block; domainId - id of a row or column, field - name of field
description:cell:click	target: HTMLElement, domainId: string, type: "rows"/"columns", field: string	Clicked on a cell in the description block; domainId - id of a row or column, field - name of field
description:cell:out	-	Moved cursor away from the description block

Migration from OncoGrid

If you previously used OncoGrid, you might want to switch to this newer version. Note that there have been changes in parameter, function, and event names.

• Update options:

• genes → rows
• donors → columns
• observations → entries
• donorTracks → columnFields
• geneTracks → rowFields
• donorOpacityFunc + donorFillFunc → description.bottom.appearance
• geneOpacityFunc + geneFillFunc → description.side.appearance
• colorMap (Map) → grid.appearance (Function)
• trackLegendLabel → fieldLegendLabel
• trackHeight → fieldHeight

• Update the structure of observations:

• Before:

  {
    "geneId": "1234",
    "donorId": "5678"
  }
  

• After:

  {
    "rowId": "1234",
    "columnId": "5678"
  }
  

• Update events:

• histogramMouseOver → histogram:hover
• histogramClick → histogram:click
• gridMouseOver → grid:cell:hover
• gridClick → grid:cell:click
• trackLegendMouseOver → description:legend:hover
• trackMouseOver → description:cell:hover
• trackClick → description:cell:click

• As the component update is still in progress, please feel free to create issues and provide feedback.

Development

• Install Node ~18. Using NVM is recommended.

• Install dependencies:

  npm install
  

Contribution guidelines

The project uses pre-commit.com hooks. Run brew install pre-commit && pre-commit install for automatic configuration.