Pathways Enrichment Analysis.

Question

[kalyanimeha]

I am trying to visualise the pathways map but getting some error? I Have already install ReactomePA Package.

> emapplot(x)

Error in emapplot(x) : could not find function "emapplot"

[GenoMax]

Isn't that part of a separate package? Have you installed loaded it (enrichplot)?

[kalyanimeha]

Getting error

Warning message:

package ‘enrichplot’ is not available (for R version 3.4.3)

[h.mon]

https://github.com/GuangchuangYu/enrichplot/issues/3

[kalyanimeha]

I have downloaded the zipfile and extracted file saved in r directory, but when calling the library its showing error.

> library(enrichplot)

Error: package or namespace load failed for ‘enrichplot’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):

 namespace ‘DOSE’ 3.4.0 is already loaded, but >= 3.5.1 is required

In addition: Warning message:

package ‘enrichplot’ was built under R version 3.5.0

[Ram]

Try Googling the exact error message, then a generic form of the error message (package was built under R version). You'll see ways to find out the root cause. Please invest some effort in solving your problems.

Answer 1

[Guangchuang Yu]

install the github version will works.

devtools::install_github("GuangchuangYu/enrichplot")

[kalyanimeha]

Still getting an error.

> library(enrichplot)

Error: package or namespace load failed for ‘enrichplot’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]):

namespace ‘DOSE’ 3.4.0 is already loaded, but >= 3.5.1 is required


> emapplot(yy)
Error in emapplot(yy) : could not find function "emapplot"

[Guangchuang Yu]

devtools::install_github(c("GuangchuangYu/DOSE", "GuangchuangYu/enrichplot"))

[jimmy_zeng]

why do you update the package at such higher frequency

[Ram]

What does that even mean? Can you elaborate on that question please?