BigWig

Last updated: 3 years ago (view history), Time to read: 1 mins

Description

These code block examples can be used to generate a figure using bigwig data as seen in VisCom.

Use: This format shows the depths of reads in RNA seq, ChIP seq, or genomic sequence as aligned to a reference genome. ProteinPaint Google Docs

URL Key Example

warning

If you are using DNAnexus links, be sure to extend the duration. See our manage data section.

Be sure to update lines 1, 3, 8, and 9 

{
    "genome": "hg19",
    "nativetracks": "RefGene",
    "position": "chr17:7565096-7590856",
    "block": true,
    "tracks": [
        {
            "type": "bigwig",
            "name": "Track name",
            "url": "https:\/\/westus.dl.azure.dnanex.us\/F\/D\/gvz3YyGqb2v1gZGZQy67QQbPKfKY70q3yZb8ZZBB\/Nalm6_ATACseq.bw",   
            "height": 100
        }
    ]
}

File Key Example

warning

If you are using a path on the HPC, the file must exist in a directory in the /tp directory. For more details, see our manage data section.

Be sure to update lines 1, 3, 8, and 9 

{
    "genome": "hg19",
    "nativetracks": "RefGene",
    "position": "chr17:7565096-7590856",
    "block": true,
    "tracks": [
        {
            "type": "bigwig",
            "name": "Track name",
            "file": "proteinpaint_demo\/hg19\/bigwig\/file.bw",  
            "height": 100
        }
    ]
}