index.md

title
Splice Junction

Description

These code block examples can be used to generate a splice junction from a cohort as seen in Viscom.

Use: This visualization displays the number and color codes the type of mapped junction reads precisely along with a gene model for multiple samples including canonical and non-canonical splice forms. ProteinPaint Google Docs

URL Key Example

This currently is not supported with a url key at this time.

!!!tip 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. !!!

File Key Example

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

{
    "genome": "hg19",
    "nativetracks": "RefGene",
    "position": "chr17:7565096-7590856",
    "block": true,
    "tracks": [
        {
            "type": "mdsjunction",
            "name": "Track name",
            "file2": "proteinpaint_demo\/hg19\/junction\/file.gz"
        }
    ]
}