vitessce
Version:
Vitessce app and React component library
120 lines (117 loc) • 2.6 kB
JavaScript
const satijaName = 'HBM336.FWTN.636';
const satijaDescription = 'Spleen scRNA-seq HuBMAP dataset with cell type annotations generated by the Satija lab and the Seurat v3.1 Label Transfer workflow';
export const satija2020 = {
version: '1.0.10',
name: satijaName,
description: satijaDescription,
public: true,
datasets: [
{
uid: '339952f4-a47f-46dc-9228-18ba2ca256f2',
name: '339952f4-a47f-46dc-9228-18ba2ca256f2',
files: [
{
type: 'cells',
fileType: 'cells.json',
url: 'https://s3.amazonaws.com/vitessce-data/0.0.31/master_release/satija/2dca1bf5832a4102ba780e9e54f6c350.cells.json',
},
{
type: 'cell-sets',
fileType: 'cell-sets.json',
url: 'https://s3.amazonaws.com/vitessce-data/0.0.31/master_release/satija/2dca1bf5832a4102ba780e9e54f6c350.cell-sets.json',
},
{
type: 'expression-matrix',
fileType: 'expression-matrix.zarr',
url: 'https://vitessce-data.storage.googleapis.com/0.0.31/master_release/satija/2dca1bf5832a4102ba780e9e54f6c350.expression-matrix.zarr',
},
],
},
],
initStrategy: 'auto',
coordinationSpace: {
embeddingType: {
UMAP: 'UMAP',
},
embeddingZoom: {
A: 3,
},
embeddingTargetX: {
A: 0,
},
embeddingTargetY: {
A: 0,
},
spatialZoom: {},
spatialTargetX: {},
spatialTargetY: {},
geneExpressionColormapRange: {
A: [0, 0.25],
},
},
layout: [
{
component: 'cellSets',
h: 4,
w: 4,
x: 4,
y: 0,
coordinationScopes: {},
},
{
component: 'cellSetSizes',
h: 4,
w: 4,
x: 8,
y: 0,
coordinationScopes: {},
},
{
component: 'scatterplot',
h: 4,
props: {
mapping: 'UMAP',
view: {
target: [
0,
0,
0,
],
zoom: 3,
},
},
w: 4,
x: 0,
y: 0,
coordinationScopes: {
embeddingType: 'UMAP',
embeddingZoom: 'A',
embeddingTargetX: 'A',
embeddingTargetY: 'A',
},
},
{
component: 'heatmap',
h: 4,
w: 10,
x: 0,
y: 4,
coordinationScopes: {
geneExpressionColormapRange: 'A',
},
props: {
transpose: false,
},
},
{
component: 'description',
h: 4,
w: 2,
x: 10,
y: 4,
props: {
description: `${satijaName}: ${satijaDescription}`,
},
},
],
};