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openbiox / UCSCXenaShiny

📊 An R package for interactively exploring UCSC Xena https://xenabrowser.net/datapages/; Book: https://lishensuo.github.io/UCSCXenaShiny_Book; App online: https://shiny.hiplot.cn/ucsc-xena-shiny/, https://shiny.zhoulab.ac.cn/UCSCXenaShiny
https://openbiox.github.io/UCSCXenaShiny/
GNU General Public License v3.0
96 stars 31 forks source link

一个想法：能不能接入 cbioportal #228

Open ShixiangWang opened 3 years ago

ShixiangWang commented 3 years ago
ShixiangWang commented 3 years ago

https://glin.github.io/reactable/articles/examples.html#shiny 可以辅助展示

ShixiangWang commented 3 years ago
ShixiangWang commented 3 years ago

cBioPortal的数据是以Study为基础，需要新型的表格展示形式

image

ShixiangWang commented 2 years ago

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
ShixiangWang commented 1 year ago

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

ShixiangWang commented 8 months ago

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