Example of loading a map and track from local files.¶

Note: To use update the 2 "url" fields to local file paths

In [ ]:

pip install git+https://github.com/igvteam/juicebox-notebook.git

Load a map and track in the intial config¶

In [2]:

pwd

Out[2]:

'/Users/dat/JuiceboxDevelopment/juicebox-notebook/examples'

In [4]:

import juicebox

juicebox.init()
b = juicebox.Browser(
    {
        "name": "GM12878",
        "url": "/Users/dat/JuiceboxDevelopment/test_data/intra_nofrag_30.hic",
        "tracks": [
            {
                "url": "/Users/dat/IGVDevelopment/test_data/WIG/ENCFF001EQU.bigWig",
                "type": "wig",
                "name": "CTCF",
                "color": "rgb(22, 129, 198)"
            }
        ]
    }

)

Load a map and track dynamically¶

In [ ]:

import juicebox


juicebox.init()

b = juicebox.Browser({})

b.load_map({
  "name": "GM12878",
  "url": "/Volumes/GoogleDrive/Shared drives/IGV/TestData/juicebox/HCT-116_Untreated.hic"
})

b.load_track({
  "url": "/Volumes/GoogleDrive/Shared drives/IGV/TestData/juicebox/CTCF_Untreated.bw",
  "type": "wig",
  "name": "CTCF",
  "color": "rgb(22, 129, 198)"
})