Nothing
## ---- include = FALSE---------------------------------------------------------
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
fig.align = "center"
)
## ----setup--------------------------------------------------------------------
library(UCSCXenaShiny)
## -----------------------------------------------------------------------------
args(query_pancan_value)
## -----------------------------------------------------------------------------
gene_expr <- query_pancan_value("TP53")
## -----------------------------------------------------------------------------
str(gene_expr)
## ----eval=FALSE---------------------------------------------------------------
# transcript_expr <- query_pancan_value("ENST00000000233", data_type = "transcript")
## ----eval=FALSE---------------------------------------------------------------
# gene_cnv <- query_pancan_value("TP53", data_type = "cnv")
## ----eval=FALSE---------------------------------------------------------------
# gene_mut <- query_pancan_value("TP53", data_type = "mutation")
## ----eval=FALSE---------------------------------------------------------------
# miRNA_expr <- query_pancan_value("hsa-let-7a-2-3p", data_type = "miRNA")
## ----fig.width=12-------------------------------------------------------------
vis_toil_TvsN(Gene = "TP53", Mode = "Violinplot", Show.P.value = FALSE, Show.P.label = FALSE)
## ----fig.width=5--------------------------------------------------------------
vis_toil_TvsN_cancer(
Gene = "TP53",
Mode = "Violinplot",
Show.P.value = TRUE,
Show.P.label = TRUE,
Method = "wilcox.test",
values = c("#DF2020", "#DDDF21"),
TCGA.only = FALSE,
Cancer = "ACC"
)
## ----fig.width=5, fig.height=6------------------------------------------------
vis_unicox_tree(
Gene = "TP53",
measure = "OS",
threshold = 0.5,
values = c("grey", "#E31A1C", "#377DB8")
)
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