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snps_filename = "/browser_input?filename=" + js_data.browser_files[0]
annot_filename = "/browser_input?filename=" + js_data.browser_files[1]
localUrls =
{
snps: snps_filename,
annotations: annot_filename
};
var coordinateSystem = js_data.chr_lengths
var vscaleWidth = 90.0;
var legendWidth = 150.0;
if ('significant' in js_data) {
var significant_score = parseFloat(js_data.significant)
} else {
var significant_score = js_data.max_score * 0.75
}
var score = { min: 0.0, max: js_data.max_score, sig: significant_score };
var gwasPadding = { top: 35.0,
bottom: 35.0,
left: vscaleWidth,
right: legendWidth };
var gwasHeight = 500.0;
var config =
{ score: score,
urls: localUrls,
tracks: {
gwas: {
trackHeight: gwasHeight,
padding: gwasPadding,
snps: {
radius: 3.75,
lineWidth: 1.0,
color: { outline: "#FFFFFF",
fill: "#00008B" },
pixelOffset: {x: 0.0, y: 0.0}
},
annotations: {
urls: {
url: "GeneNetwork"
},
radius: 5.5,
outline: "#000000",
snpColor: "#0074D9",
geneColor: "#FF4136"
},
score: score,
legend: {
fontSize: 14,
hPad: 0.1,
vPad: 0.2
},
vscale: {
color: "#000000",
hPad: 0.125,
numSteps: 3,
fonts: { labelSize: 18, scaleSize: 16 }
},
},
},
chrs: {
chrBG1: "#FFFFFF",
chrBG2: "#EEEEEE",
chrLabels: { fontSize: 16 },
},
// initialChrs: { left: "1", right: "5" }
coordinateSystem: coordinateSystem,
};
if (js_data.selected_chr != -1) {
config['initialChrs'] = {left: js_data.selected_chr, right: js_data.selected_chr}
}
$('#browser_tab').click(function() {
if ($('#gwas').length == 0){
GenomeBrowser.main(config)();
}
});
document.getElementById("controls").style.visibility = "visible";
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