Genome

For Gosling to show the correct genomic axis range for your data, you must specify what genome or human genome assembly Gosling should use.

Human genome

You can specify which human genome assembly your data uses using the assembly property (default: "hg38").

{
  "assembly": "hg38", // Globally define assembly to all tracks except ones that specify a certain assembly
  "tracks": [{
    ..., "assembly": "hg19" // Use a different assembly for this track
  }],
  ...
}

Gosling currently supports the following six genome builds: "hg38", "hg19", "hg17", "hg16", "mm10", "mm9", and "unknown".

Non-human genomes

For non-human genomes, you can specify custom chromosome sizes. For example, the E. coli genome has a single chromosome, which has a length of 4641652 bases.

{
  "assembly": [["chr1", 4641652], ["chr2", 323132]], // two chromosomes, one with length 4641652 nt, one with length 323132
  "tracks": [{
    ...,
  }],
  ...
}

You can also specify multiple chromosomes!

{
  "assembly": [["U00096.3", 4641652], []], // The E. coli chromosome name is U00096.3
  "tracks": [{
    ...,
  }],
  ...
}

When {"assembly": "unknown"}, the genomic axes do not display chrN: in labels.