-
Notifications
You must be signed in to change notification settings - Fork 1
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
Merge pull request #26 from NickAkhmetov/nickakhmetov/visx
- Loading branch information
Showing
85 changed files
with
14,876 additions
and
7,119 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,17 @@ | ||
| { | ||
| "eslint.format.enable": true, | ||
| "eslint.useFlatConfig": true, | ||
| "eslint.workingDirectories": ["./src"], | ||
| "[javascript|typescript|javascriptreact|typescriptreact]": { | ||
| "editor.defaultFormatter": "dbaeumer.vscode-eslint" | ||
| }, | ||
| "editor.codeActionsOnSave": { | ||
| "source.sortImports": "always", | ||
| "source.fixAll": "always" | ||
| }, | ||
| "cSpell.words": [ | ||
| "cellpop", | ||
| "epanechnikov", | ||
| "zustand" | ||
| ] | ||
| } |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,40 +1,43 @@ | ||
| import { showAnimation } from "../src/visualization/animation"; | ||
| import { loadHuBMAPData } from "../src/dataLoading/dataHuBMAP"; | ||
| import { showAnimation } from "../src/visualization/animation"; | ||
| // data | ||
| const uuids = ["ad693f99fb9006e68a53e97598da1509", | ||
| "173de2e80adf6a73ac8cff5ccce20dfc", | ||
| "b95f34761c252ebbd1e482cd9afae73f", | ||
| "5a5ca03fa623602d9a859224aa40ace4", | ||
| "3c1b10bc912c60c9afc36b7423695236", | ||
| "1dc16eb0270ff73291dd45b6a96aa3c0", | ||
| "b05c21f9c94ce1a22a9694cd0fe0291e", | ||
| "8cdb42ed1194255c74c8462b99bbd7ef", | ||
| "fe0ded5fc0355c95239f9c040dd31e99", | ||
| "367fee3b40cba682063289505b922be1", | ||
| "b99fc30c4195958fbef217fa9ed9ec8f", | ||
| "898138b7f45a67c574e9955fb400e9be", | ||
| "f220c9e7bcaea3a87162cbe61287ea4d", | ||
| "e5f7a14d93659bd0b8dc2819ffa9bc4b", | ||
| "56cbda4789f04d79c0c3dffe21816d48", | ||
| "0b6f63f2bd61a8c091fc7afc0f318ad1", | ||
| "62efbe0a6abd0bcf53ab9ab29e7cd73f", | ||
| "4b62d9d2c248323ce029859f953fdc57", | ||
| "c81b0dc9d16eb825a7d6bce6e1b3678f", | ||
| "5ee240959c96b49d960702755478b9fc", | ||
| "7c9e07c96d144536525b1f889acee14d", | ||
| "dd7ccbc306692fc5ff5e61c22845da21", | ||
| "9a7e6be288b27ddbd3366c4ae41bbcd2", | ||
| "018a905cdbdff684760859f594d3fd77", | ||
| "af5741dad7aecf7960a129c3d2ae642a", | ||
| "6e1db473492095ccc2f1393d7259b9c0", | ||
| "fae9a1f2e7abefca2203765a3c7a5ba1", | ||
| "8d631eee88855ac59155edca2a3bc1ca", | ||
| "1ea6c0ac5ba60fe35bf63af8699b6fbe"]; | ||
|
|
||
| const uuids = [ | ||
| "ad693f99fb9006e68a53e97598da1509", | ||
| "173de2e80adf6a73ac8cff5ccce20dfc", | ||
| "b95f34761c252ebbd1e482cd9afae73f", | ||
| "5a5ca03fa623602d9a859224aa40ace4", | ||
| "3c1b10bc912c60c9afc36b7423695236", | ||
| "1dc16eb0270ff73291dd45b6a96aa3c0", | ||
| "b05c21f9c94ce1a22a9694cd0fe0291e", | ||
| "8cdb42ed1194255c74c8462b99bbd7ef", | ||
| "fe0ded5fc0355c95239f9c040dd31e99", | ||
| "367fee3b40cba682063289505b922be1", | ||
| "b99fc30c4195958fbef217fa9ed9ec8f", | ||
| "898138b7f45a67c574e9955fb400e9be", | ||
| "f220c9e7bcaea3a87162cbe61287ea4d", | ||
| "e5f7a14d93659bd0b8dc2819ffa9bc4b", | ||
| "56cbda4789f04d79c0c3dffe21816d48", | ||
| "0b6f63f2bd61a8c091fc7afc0f318ad1", | ||
| "62efbe0a6abd0bcf53ab9ab29e7cd73f", | ||
| "4b62d9d2c248323ce029859f953fdc57", | ||
| "c81b0dc9d16eb825a7d6bce6e1b3678f", | ||
| "5ee240959c96b49d960702755478b9fc", | ||
| "7c9e07c96d144536525b1f889acee14d", | ||
| "dd7ccbc306692fc5ff5e61c22845da21", | ||
| "9a7e6be288b27ddbd3366c4ae41bbcd2", | ||
| "018a905cdbdff684760859f594d3fd77", | ||
| "af5741dad7aecf7960a129c3d2ae642a", | ||
| "6e1db473492095ccc2f1393d7259b9c0", | ||
| "fae9a1f2e7abefca2203765a3c7a5ba1", | ||
| "8d631eee88855ac59155edca2a3bc1ca", | ||
| "1ea6c0ac5ba60fe35bf63af8699b6fbe", | ||
| ]; | ||
|
|
||
| // Load data directly as demo | ||
| loadHuBMAPData(uuids).then((data) => { | ||
| showAnimation(data!); | ||
| }).catch(error => { | ||
| console.error(error); | ||
| }); | ||
| loadHuBMAPData(uuids) | ||
| .then((data) => { | ||
| showAnimation(data!); | ||
| }) | ||
| .catch((error) => { | ||
| console.error(error); | ||
| }); |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,91 +1,86 @@ | ||
| import React, { useEffect, useState } from "react"; | ||
| import { loadHuBMAPData } from "../src/dataLoading/dataHuBMAP"; | ||
| import { CellPop } from "../src/CellPopComponent"; | ||
| import { CellPopData, CellPopDimensions } from "../src/cellpop-schema"; | ||
| import { getDimensions, getDimensionsGlobal } from "../src/visualization/size"; | ||
|
|
||
| import { CellPopData } from "../src/cellpop-schema"; | ||
| import { loadHuBMAPData } from "../src/dataLoading/dataHuBMAP"; | ||
|
|
||
| function Demo() { | ||
| const [data, setData] = useState<CellPopData>(); | ||
|
|
||
| const [data, setData] = useState<CellPopData>(); | ||
|
|
||
| // data | ||
| const uuids = ["ad693f99fb9006e68a53e97598da1509", | ||
| "173de2e80adf6a73ac8cff5ccce20dfc", | ||
| "b95f34761c252ebbd1e482cd9afae73f", | ||
| "5a5ca03fa623602d9a859224aa40ace4", | ||
| "3c1b10bc912c60c9afc36b7423695236", | ||
| "1dc16eb0270ff73291dd45b6a96aa3c0", | ||
| "b05c21f9c94ce1a22a9694cd0fe0291e", | ||
| "8cdb42ed1194255c74c8462b99bbd7ef", | ||
| "fe0ded5fc0355c95239f9c040dd31e99", | ||
| "367fee3b40cba682063289505b922be1", | ||
| "b99fc30c4195958fbef217fa9ed9ec8f", | ||
| "898138b7f45a67c574e9955fb400e9be", | ||
| "f220c9e7bcaea3a87162cbe61287ea4d", | ||
| "e5f7a14d93659bd0b8dc2819ffa9bc4b", | ||
| "56cbda4789f04d79c0c3dffe21816d48", | ||
| "0b6f63f2bd61a8c091fc7afc0f318ad1", | ||
| "62efbe0a6abd0bcf53ab9ab29e7cd73f", | ||
| "4b62d9d2c248323ce029859f953fdc57", | ||
| "c81b0dc9d16eb825a7d6bce6e1b3678f", | ||
| "5ee240959c96b49d960702755478b9fc", | ||
| "7c9e07c96d144536525b1f889acee14d", | ||
| "dd7ccbc306692fc5ff5e61c22845da21", | ||
| "9a7e6be288b27ddbd3366c4ae41bbcd2", | ||
| "018a905cdbdff684760859f594d3fd77", | ||
| "af5741dad7aecf7960a129c3d2ae642a", | ||
| "6e1db473492095ccc2f1393d7259b9c0", | ||
| "fae9a1f2e7abefca2203765a3c7a5ba1", | ||
| "8d631eee88855ac59155edca2a3bc1ca", | ||
| "1ea6c0ac5ba60fe35bf63af8699b6fbe"]; | ||
|
|
||
| // useEffect to make sure the data only loads once | ||
| useEffect(() => { | ||
| loadHuBMAPData(uuids).then((data) => { | ||
| setData(data!); | ||
| // getMainVis(data); | ||
| }).catch(error => { | ||
| console.error(error); | ||
| }); | ||
| }, []); | ||
|
|
||
| // const props = { | ||
| // data: null, | ||
| // theme: "light", | ||
| // } | ||
|
|
||
| const widthRatio = 0.8; | ||
| const heightRatio = 0.8; | ||
|
|
||
| const widthRight = 45 * 25; | ||
| const heightBottom = 20 * 40; | ||
| // data | ||
| const uuids = [ | ||
| "ad693f99fb9006e68a53e97598da1509", | ||
| "173de2e80adf6a73ac8cff5ccce20dfc", | ||
| "b95f34761c252ebbd1e482cd9afae73f", | ||
| "5a5ca03fa623602d9a859224aa40ace4", | ||
| "3c1b10bc912c60c9afc36b7423695236", | ||
| "1dc16eb0270ff73291dd45b6a96aa3c0", | ||
| "b05c21f9c94ce1a22a9694cd0fe0291e", | ||
| "8cdb42ed1194255c74c8462b99bbd7ef", | ||
| "fe0ded5fc0355c95239f9c040dd31e99", | ||
| "367fee3b40cba682063289505b922be1", | ||
| "b99fc30c4195958fbef217fa9ed9ec8f", | ||
| "898138b7f45a67c574e9955fb400e9be", | ||
| "f220c9e7bcaea3a87162cbe61287ea4d", | ||
| "e5f7a14d93659bd0b8dc2819ffa9bc4b", | ||
| "56cbda4789f04d79c0c3dffe21816d48", | ||
| "0b6f63f2bd61a8c091fc7afc0f318ad1", | ||
| "62efbe0a6abd0bcf53ab9ab29e7cd73f", | ||
| "4b62d9d2c248323ce029859f953fdc57", | ||
| "c81b0dc9d16eb825a7d6bce6e1b3678f", | ||
| "5ee240959c96b49d960702755478b9fc", | ||
| "7c9e07c96d144536525b1f889acee14d", | ||
| "dd7ccbc306692fc5ff5e61c22845da21", | ||
| "9a7e6be288b27ddbd3366c4ae41bbcd2", | ||
| "018a905cdbdff684760859f594d3fd77", | ||
| "af5741dad7aecf7960a129c3d2ae642a", | ||
| "6e1db473492095ccc2f1393d7259b9c0", | ||
| "fae9a1f2e7abefca2203765a3c7a5ba1", | ||
| "8d631eee88855ac59155edca2a3bc1ca", | ||
| "1ea6c0ac5ba60fe35bf63af8699b6fbe", | ||
| ]; | ||
|
|
||
| const width = widthRight / widthRatio; | ||
| const height = heightBottom / heightRatio; | ||
| // useEffect to make sure the data only loads once | ||
| useEffect(() => { | ||
| loadHuBMAPData(uuids) | ||
| .then((data) => { | ||
| setData(data!); | ||
| // getMainVis(data); | ||
| }) | ||
| .catch((error) => { | ||
| console.error(error); | ||
| }); | ||
| }, []); | ||
|
|
||
| const widthLeft = width - widthRight; | ||
| const heightTop = height - heightBottom; | ||
| // const props = { | ||
| // data: null, | ||
| // theme: "light", | ||
| // } | ||
|
|
||
| // const dimensions = { | ||
| // global: {width: width, widthSplit: [widthLeft, widthRight], height: height, heightSplit: [heightTop, heightBottom]}, | ||
| // heatmap: {offsetWidth: widthLeft, offsetHeight: heightTop, width: widthRight, height: heightBottom, margin: {top: 0, right: 400, bottom: 100, left: 0}}, | ||
| // barTop: {offsetWidth: widthLeft, offsetHeight: 0, width: widthRight, height: heightTop, margin: {top: 50, right: 50, bottom: 0, left: 0}}, | ||
| // violinTop: {offsetWidth: widthLeft, offsetHeight: 0, width: widthRight, height: heightTop, margin: {top: 50, right: 50, bottom: 0, left: 0}}, | ||
| // barLeft: {offsetWidth: 0, offsetHeight: heightTop, width: widthLeft, height: heightBottom, margin: {top: 0, right: 0, bottom: 100, left: 50}}, | ||
| // violinLeft: {offsetWidth: 0, offsetHeight: heightTop, width: widthLeft, height: heightBottom, margin: {top: 0, right: 0, bottom: 100, left: 50}}, | ||
| // graph: {offsetWidth: widthLeft, offsetHeight: height, width: widthRight, height: heightTop, margin: {top: 0, right: 200, bottom: 0, left: 0}}, | ||
| // detailBar: {offsetWidth: widthLeft, offsetHeight: 0, width: widthRight, height: height, margin: {top: 50, right: 200, bottom: 50, left: 0}}, | ||
| // textSize: {title: "20px", label: "30px", labelSmall: "20px", tick: "10px"} | ||
| // } as CellPopDimensions; | ||
| console.log(data); | ||
|
|
||
| const dimensions = getDimensions(1500, 200, 400, 200, 5, 5, 100, 5, 1000, 200, 400, 0, 5, 5, 100, 5, 1000, 900, 50, 50); | ||
| if (!data) { | ||
| return <div>Loading...</div>; | ||
| } | ||
|
|
||
| return ( | ||
| <> | ||
| {data ? <CellPop data={data} theme={"light"} dimensions={dimensions}/> : <div>Loading...</div>} | ||
| </> | ||
| ); | ||
| return ( | ||
| <CellPop | ||
| data={data} | ||
| theme={"light"} | ||
| dimensions={{ width: 1500, height: 1000 }} | ||
| yAxisConfig={{ | ||
| label: "Sample", | ||
| createHref: (row) => | ||
| `https://portal.hubmapconsortium.org/browse/${row}`, | ||
| flipAxisPosition: true, | ||
| }} | ||
| xAxisConfig={{ | ||
| label: "Cell Type", | ||
| createHref: (col) => | ||
| `https://www.ebi.ac.uk/ols4/search?q=${col}&ontology=cl`, | ||
| flipAxisPosition: true, | ||
| }} | ||
| /> | ||
| ); | ||
| } | ||
|
|
||
| export default Demo; | ||
| export default Demo; |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,7 +1,5 @@ | ||
| import React from "react"; | ||
| import ReactDOM from "react-dom/client"; | ||
| import Demo from "./demo.jsx"; | ||
| import Demo from "./demo.tsx"; | ||
|
|
||
| ReactDOM.createRoot(document.getElementById("root")!).render( | ||
| <Demo /> | ||
| ); | ||
| ReactDOM.createRoot(document.getElementById("root")!).render(<Demo />); |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,41 +1,42 @@ | ||
| import { getMainVis } from "../src/cellpop"; | ||
| // import { getMainVis } from "../src/cellpop"; | ||
| import { loadHuBMAPData } from "../src/dataLoading/dataHuBMAP"; | ||
|
|
||
| // data | ||
| const uuids = ["ad693f99fb9006e68a53e97598da1509", | ||
| "173de2e80adf6a73ac8cff5ccce20dfc", | ||
| "b95f34761c252ebbd1e482cd9afae73f", | ||
| "5a5ca03fa623602d9a859224aa40ace4", | ||
| "3c1b10bc912c60c9afc36b7423695236", | ||
| "1dc16eb0270ff73291dd45b6a96aa3c0", | ||
| "b05c21f9c94ce1a22a9694cd0fe0291e", | ||
| "8cdb42ed1194255c74c8462b99bbd7ef", | ||
| "fe0ded5fc0355c95239f9c040dd31e99", | ||
| "367fee3b40cba682063289505b922be1", | ||
| "b99fc30c4195958fbef217fa9ed9ec8f", | ||
| "898138b7f45a67c574e9955fb400e9be", | ||
| "f220c9e7bcaea3a87162cbe61287ea4d", | ||
| "e5f7a14d93659bd0b8dc2819ffa9bc4b", | ||
| "56cbda4789f04d79c0c3dffe21816d48", | ||
| "0b6f63f2bd61a8c091fc7afc0f318ad1", | ||
| "62efbe0a6abd0bcf53ab9ab29e7cd73f", | ||
| "4b62d9d2c248323ce029859f953fdc57", | ||
| "c81b0dc9d16eb825a7d6bce6e1b3678f", | ||
| "5ee240959c96b49d960702755478b9fc", | ||
| "7c9e07c96d144536525b1f889acee14d", | ||
| "dd7ccbc306692fc5ff5e61c22845da21", | ||
| "9a7e6be288b27ddbd3366c4ae41bbcd2", | ||
| "018a905cdbdff684760859f594d3fd77", | ||
| "af5741dad7aecf7960a129c3d2ae642a", | ||
| "6e1db473492095ccc2f1393d7259b9c0", | ||
| "fae9a1f2e7abefca2203765a3c7a5ba1", | ||
| "8d631eee88855ac59155edca2a3bc1ca", | ||
| "1ea6c0ac5ba60fe35bf63af8699b6fbe"]; | ||
|
|
||
| const uuids = [ | ||
| "ad693f99fb9006e68a53e97598da1509", | ||
| "173de2e80adf6a73ac8cff5ccce20dfc", | ||
| "b95f34761c252ebbd1e482cd9afae73f", | ||
| "5a5ca03fa623602d9a859224aa40ace4", | ||
| "3c1b10bc912c60c9afc36b7423695236", | ||
| "1dc16eb0270ff73291dd45b6a96aa3c0", | ||
| "b05c21f9c94ce1a22a9694cd0fe0291e", | ||
| "8cdb42ed1194255c74c8462b99bbd7ef", | ||
| "fe0ded5fc0355c95239f9c040dd31e99", | ||
| "367fee3b40cba682063289505b922be1", | ||
| "b99fc30c4195958fbef217fa9ed9ec8f", | ||
| "898138b7f45a67c574e9955fb400e9be", | ||
| "f220c9e7bcaea3a87162cbe61287ea4d", | ||
| "e5f7a14d93659bd0b8dc2819ffa9bc4b", | ||
| "56cbda4789f04d79c0c3dffe21816d48", | ||
| "0b6f63f2bd61a8c091fc7afc0f318ad1", | ||
| "62efbe0a6abd0bcf53ab9ab29e7cd73f", | ||
| "4b62d9d2c248323ce029859f953fdc57", | ||
| "c81b0dc9d16eb825a7d6bce6e1b3678f", | ||
| "5ee240959c96b49d960702755478b9fc", | ||
| "7c9e07c96d144536525b1f889acee14d", | ||
| "dd7ccbc306692fc5ff5e61c22845da21", | ||
| "9a7e6be288b27ddbd3366c4ae41bbcd2", | ||
| "018a905cdbdff684760859f594d3fd77", | ||
| "af5741dad7aecf7960a129c3d2ae642a", | ||
| "6e1db473492095ccc2f1393d7259b9c0", | ||
| "fae9a1f2e7abefca2203765a3c7a5ba1", | ||
| "8d631eee88855ac59155edca2a3bc1ca", | ||
| "1ea6c0ac5ba60fe35bf63af8699b6fbe", | ||
| ]; | ||
|
|
||
| // Load data directly as demo | ||
| loadHuBMAPData(uuids).then((data) => { | ||
| getMainVis(data!); | ||
| }).catch(error => { | ||
| console.error(error); | ||
| }); | ||
| // loadHuBMAPData(uuids).then((data) => { | ||
| // getMainVis(data!); | ||
| // }).catch(error => { | ||
| // console.error(error); | ||
| // }); |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,17 +1,34 @@ | ||
| // @ts-check | ||
|
|
||
| import eslint from "@eslint/js"; | ||
| import eslintConfigPrettier from "eslint-plugin-prettier/recommended"; | ||
| import reactPlugin from "eslint-plugin-react"; | ||
| import globals from 'globals'; | ||
| import tseslint from "typescript-eslint"; | ||
|
|
||
| export default tseslint.config( | ||
| eslint.configs.recommended, | ||
| ...tseslint.configs.recommended, | ||
| eslintConfigPrettier, | ||
| { | ||
| "rules": { | ||
| files: ['**/*.{jsx,tsx}'], | ||
| ...reactPlugin.configs.flat.recommended, | ||
| }, | ||
| { | ||
| files: ['**/*.{jsx,tsx}'], | ||
| languageOptions: { | ||
| globals: { | ||
| ...globals.serviceworker, | ||
| ...globals.browser, | ||
| }, | ||
| }, | ||
| }, | ||
| { | ||
| rules: { | ||
| "linebreak-style": ["error", "unix"], | ||
| "quotes": ["error", "double"], | ||
| "semi": ["error", "always"], | ||
| quotes: ["error", "double"], | ||
| semi: ["error", "always"], | ||
| "no-trailing-spaces": "error", | ||
| } | ||
| }, | ||
| } | ||
| ); | ||
| ); |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,3 +1,3 @@ | ||
| declare module "@vitessce/zarr" { | ||
| export * from "@vitessce/zarr"; | ||
| export * from "@vitessce/zarr"; | ||
| } |
Oops, something went wrong.