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一个想法：能不能接入 cbioportal #228

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ShixiangWang opened this issue Nov 3, 2021 · 6 comments
Open

一个想法：能不能接入 cbioportal #228

ShixiangWang opened this issue Nov 3, 2021 · 6 comments
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@ShixiangWang ShixiangWang self-assigned this Nov 3, 2021
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https://glin.github.io/reactable/articles/examples.html#shiny 可以辅助展示

@ShixiangWang ShixiangWang added plan question Further information is requested labels Nov 3, 2021
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cBioPortal的数据是以Study为基础，需要新型的表格展示形式

image

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把数据整个下载再导入操作感觉更方便点：

library(cBioPortalData)

studies <- getStudies(cBioPortal())
studies

x = cBioDataPack(studies$studyId[1])
sampleMap(x)
colData(x)
x2 = experiments(x)
x2$cna_hg19.seg
x3 = assays(x)
str(x3, max.level = 2)
x3$CNA

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https://www.karissawhiting.com/cbioportalR/

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a case: https://can-sat.erc.monash.edu/

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