Visualization Community | St. Jude Cloud

T-ALL Genomic Data

Mullighan Lab

Oct 5, 2023

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Whole Genome Sequencing

Genomic tracks of structural variant breakpoints, copy number gains/amplifications or loss/deletions and SNV/Indels are shown.

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{
  	"host": "https://proteinpaint.stjude.org/",
    "genome": "hg38",
    "nativetracks": "RefGene",
    "position": "chr1:47194949-47259129",
    "block": true,
    "tracks": [
       {
  "type": "bedj",
  "file": "ppolonen/hg38/BED/brk_visualization.bed.gz",
  "name": "Breakpoints",
  "color": "#814EFA"
},
  {
    "type": "bedj",
    "file": "ppolonen/hg38/BED/mut_visualization.bed.gz",
    "name": "Mutations",
    "color": "#195C37"
  },
  {
    "type": "bedj",
    "file": "ppolonen/hg38/BED/loss_visualization.bed.gz",
    "name": "Loss/Del",
    "color": "#4951BB"
  },
  {
    "type": "bedj",
    "file": "ppolonen/hg38/BED/gain_visualization.bed.gz",
    "name": "Gain/Amp",
    "color": "#FF2600"
  }
    ]
}

Visualization Code

{
  	"host": "https://proteinpaint.stjude.org/",
    "genome": "hg38",
    "nativetracks": "RefGene",
    "position": "chr1:47194949-47259129",
    "block": true,
    "tracks": [
       {
  "type": "bedj",
  "file": "ppolonen/hg38/BED/brk_visualization.bed.gz",
  "name": "Breakpoints",
  "color": "#814EFA"
},
  {
    "type": "bedj",
    "file": "ppolonen/hg38/BED/mut_visualization.bed.gz",
    "name": "Mutations",
    "color": "#195C37"
  },
  {
    "type": "bedj",
    "file": "ppolonen/hg38/BED/loss_visualization.bed.gz",
    "name": "Loss/Del",
    "color": "#4951BB"
  },
  {
    "type": "bedj",
    "file": "ppolonen/hg38/BED/gain_visualization.bed.gz",
    "name": "Gain/Amp",
    "color": "#FF2600"
  }
    ]
}

T-ALL Genomic Data

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Visualization Code