The avatar for @aaronge-2020
Aaron Ge
Public
Edited
Jan 2
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// module = import("https://episphere.github.io/msig/main.js")
module = import('http://127.0.0.1:5500/main.js')
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mSigSDK = module.mSigSDK
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projectData = await mSigSDK.mSigPortal.mSigPortalData.getMutationalSpectrumData(
"PCAWG",
null,
"WGS",
null,
"SBS",
96,
);
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mSigSDK.mSigPortal.mSigPortalPlots.plotProfilerSummary("PCAWG","WGS","Lung-AdenoCA", 741);

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mSigSDK.mSigPortal.mSigPortalPlots.plotProjectMutationalBurdenByCancerType(projectData, "cancerTypeSummary")
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mutationalSpectrumData = await mSigSDK.mSigPortal.mSigPortalData.getMutationalSpectrumData(
"PCAWG",
["SP99181", "SP98955"],
"WGS",
"Liver-HCC",
"SBS",
96,
);
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mSigSDK.mSigPortal.mSigPortalPlots.plotPatientMutationalSpectrum(mutationalSpectrumData, "mutationalSpectrumMatrix");
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cancerType = "Lung-AdenoCA"
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extractedData = await mSigSDK.mSigPortal.mSigPortalData.getMutationalSpectrumData(
"PCAWG",
null,
"WGS",
cancerType,
"SBS",
96,
);
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formattedClusters = mSigSDK.mSigPortal.mSigPortalPlots.plotForceDirectedTree(extractedData, "PCAWG","WGS",cancerType, "forceDirectedTree");
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cosSimilarity = mSigSDK.mSigPortal.mSigPortalPlots.plotCosineSimilarityHeatMap(extractedData, "PCAWG", "WGS", "Lung-AdenoCA", "cosineSimilarityHeatMap", true);
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embeddings = mSigSDK.mSigPortal.mSigPortalPlots.plotUMAPVisualization(extractedData, "PCAWG", "umapVisualization", 3, 0.1, 15)
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data = await mSigSDK.mSigPortal.mSigPortalData.getMutationalSignatureActivityData('PCAWG','WGS','COSMIC_v3_Signatures_GRCh37_SBS96','',100000)
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mSigSDK.mSigPortal.mSigPortalPlots.plotSignatureActivityDataBy("testDiv", data, 'cancer');
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mSigSDK.mSigPortal.mSigPortalPlots.plotSignatureAssociations("associations", data, 'SBS1', 'SBS2')
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mSigSDK.mSigPortal.mSigPortalPlots.plotMSPrevalenceData("prevalence", data)
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One platform to build and deploy the best data apps

Experiment and prototype by building visualizations in live JavaScript notebooks. Collaborate with your team and decide which concepts to build out.
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