OverrepForm Component

A customizable form component built with StencilJS for gene overrepresentation analysis. This component provides an interface for users to input gene IDs and select ontology options, with support for example data and customizable styling.

Features

• Gene ID input textarea with configurable rows
• Ontology selection dropdown
• Example data population
• Customizable labels and hints
• Flexible submission handling (URL or event-based)
• Comprehensive CSS theming support
• Shadow DOM encapsulation

Installation

NPM

npm install pango-toolbar

CDN

<script type="module" src="https://unpkg.com/pango-toolbar@latest/dist/panther-pango-toolbar/panther-pango-toolbar.esm.js"></script>

Usage

Basic HTML

    <script type="module" src="https://unpkg.com/pango-toolbar@latest/dist/panther-pango-toolbar/panther-pango-toolbar.esm.js"></script>
    <style>
        /* Component styles */
        pango-toolbar {
            /* Layout */
            --overrep-width: 100%;
            --overrep-height: 450px;
            
            /* Colors */
            --overrep-primary-color: #4a90e2;
            --overrep-secondary-color: #f5f6f7;
            --overrep-text-color: #333333;
            --overrep-border-color: #e1e4e8;
            
            /* Typography */
            --overrep-font-size: 16px;
            
            /* Spacing */
            --pango-toolbar-spacing: 1.5rem;
            --overrep-border-radius: 8px;
            
            /* Add shadow */
            box-shadow: 0 2px 8px rgba(0,0,0,0.1);
        }
    </style>
    <div class="form-container">
        <pango-toolbar
            ontology-options='[
                {"id": "biological_process_IBA", "label": "biological process PAN-GO"},
                {"id": "molecular_function_IBA", "label": "molecular function PAN-GO"},
                {"id": "cellular_component_IBA", "label": "cellular component PAN-GO"}
            ]'
            example-genes='["AKT1", "BDNF", "CCKAR", "CHI3L1"]'
            submit-url="/api/overrep"
            species="HUMAN"
            test-type="FISHER"
            ontology-label="Choose Ontology Type"
            gene-ids-label="Input Gene IDs"
            submit-label="Run Analysis"
            examples-label="Use Example Set"
            show-hint="true"
            hint="Accepts gene symbols and IDs"
        ></pango-toolbar>
    </div>
></pango-toolbar>

React

import { OverrepForm } from 'pango-toolbar';

const App = () => {
  const ontologyOptions = [
    { id: "biological_process_IBA", label: "biological process PAN-GO" },
    { id: "molecular_function_IBA", label: "molecular function PAN-GO" },
    { id: "cellular_component_IBA", label: "cellular component PAN-GO" }
  ];

  const exampleGenes = [
    "AKT1", "BDNF", "CCKAR", "CHI3L1", "CHRNA7",
    "CLDN5", "CNR1", "COMT"
  ];

  return (
    <OverrepForm
      ontologyOptions={ontologyOptions}
      exampleGenes={exampleGenes}
      submitUrl="/api/overrep"
    />
  );
};

Angular

// app.module.ts
import { CUSTOM_ELEMENTS_SCHEMA, NgModule } from '@angular/core';
import { BrowserModule } from '@angular/platform-browser';
import { AppComponent } from './app.component';

@NgModule({
  declarations: [AppComponent],
  imports: [BrowserModule],
  schemas: [CUSTOM_ELEMENTS_SCHEMA]
})
export class AppModule {}

// app.component.ts
import { Component } from '@angular/core';
import 'pango-toolbar';

@Component({
  selector: 'app-root',
  template: `
    <pango-toolbar
      [ontologyOptions]="ontologyOptions"
      [exampleGenes]="exampleGenes"
      submitUrl="/api/overrep"
    ></pango-toolbar>
  `
})
export class AppComponent {
  ontologyOptions = [
    { id: "biological_process_IBA", label: "biological process PAN-GO" },
    { id: "molecular_function_IBA", label: "molecular function PAN-GO" },
    { id: "cellular_component_IBA", label: "cellular component PAN-GO" }
  ];

  exampleGenes = [
    "AKT1", "BDNF", "CCKAR", "CHI3L1", "CHRNA7",
    "CLDN5", "CNR1", "COMT"
  ];
}

Props

Prop	Type	Default	Description
ontologyOptions	OntologyOption[]	[]	Array of available ontology options
exampleGenes	string[]	[]	Example gene IDs to populate the form
submitUrl	string	/api/overrep	URL for form submission
species	string	'HUMAN'	Species identifier
testType	string	'FISHER'	Statistical test type
textareaRows	number	3	Number of rows in gene ID textarea
submitLabel	string	'Launch'	Submit button label
examplesLabel	string	'Examples'	Examples button label
geneIdsLabel	string	'Your Gene IDs'	Gene IDs input label
ontologyLabel	string	'Ontology'	Ontology selector label
hint	string	'can use UniProt ID/AC...'	Help text shown below form
showHint	boolean	true	Toggle hint visibility

Events

The component emits a single event overrepSubmit when the form is submitted:

interface FormSubmitEvent {
  geneIds: string;    // Newline-separated gene IDs
  ontology: string;   // Selected ontology ID
  species: string;    // Species identifier
  testType: string;   // Statistical test type
}

Development

1. Clone the repository

git clone [will-change-repo]

2. Install dependencies

npm install

3. Start development server

npm start

4. Running Tests

npm test

5. Build for production

npm run build

Browser Support

• Chrome 67+
• Firefox 63+
• Safari 10.1+
• Edge 79+

License

MIT