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@ManuelGoepferich
`getDb` is no longer exported from `GOSemSim`. The maintainer moved the function to `ReactomePA`. He is not currently exporting the function but I recommended to him that he does.
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Dear Guangchuang,
How to increase cnetplot edge thickness and change edge colour to black?
I am using ReactomePA_1.24.0 on R version 3.5.1 (2018-07-02)
Thanks
Sincerely,
Wasim
### Prerequisites…
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Hello,
I am using the cnetplot function in clusterProfiler to plot the top 5 over-represented pathways in my gene list. I would like to increase the font size of the node labels and increase the wi…
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Is it possible to perform gene cluster comparison analysis with `clusterProfiler::compareCluster` using the `enrichPathway `function on a mouse data set?
This is what I havce done:
```
require(c…
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I ran `compareCluster()` using `fun = "ReactomePA::enrichPathway"`. Then when I run `dotplot()` on the resulting object, I get this error:
```
Error in `levels
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### Prerequisites
+ [x] Have you read [Feedback](https://guangchuangyu.github.io/reactomepa/#feedback) and follow the [guide](https://guangchuangyu.github.io/2016/07/how-to-bug-author/)?
* [x] ma…
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I'm trying to write a shiny app using this package, however, I am unable to identify the input structure required to run GSEA. More specifically, I need to know what is the first argument for gsePathw…
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hello,
I want to create several PDF files with Functional_enrichment Doplot as Chipseeker vignette with a for loop.
http://bioconductor.org/packages/devel/bioc/vignettes/ChIPseeker/inst/doc/ChIPsee…
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I have some code to analyze a dataset that I used in 2016 and that produced great results..
genes
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Hi,
Thanks for establishing the R-based Reactome tool.
I want to do a pathway analysis based on a list of mouse genes, but when I tried the function `enrichPathway`, an error pops out as
"--> …