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https://mp.weixin.qq.com/s/pWeOT1oBp4CKNPp9I9FQkA
ixxmu updated
2 years ago
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Hi Guangchuang,
I am using clusterprofiler for GO and KEGG over representation analysis. My input is a list of ensembl gene ids.(attached in gene_list.txt).
[gene_list.txt](https://github.com/Guangc…
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Hi,
I am having issues with the simplify function.
```
ont_option = "BP"
pvalueCutoff = 0.05
qvalueCutoff = 0.05
macGSSize = 1000
pathway_db = "enrichGO"
background
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Awesome package so far, I really like it.
I do not fancy the default color scales though. Can you make them customizable?
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Hello. I have 6 datasets looking at how a treatment affects lung, liver and kidney endothelial cell proteomic expression at 4 and 24 hrs. When I run enrichGO across each of the 3 4 hr datasets for ins…
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https://mp.weixin.qq.com/s/lMhVxC-00bC_JY1BoXFY9Q
ixxmu updated
2 years ago
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This is a problem with all of the GO annotation packages I have tried, and I suspect that the root issue is in topGO. But, I'm not sure.
`org.Sc.sgd.db` is listed as one of the accepted org package…
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Hi there,
Hope you can help me figure out what was wrong. I tried to use the gsePathway function to analyze some RNA-seq data from maize, I first ranked the genes (using metrics: -log10(padj) * sig…
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Hi. Thanks for your effort in developing clusterProfiler. I want to know how to create an enrichment map with the returned clusterProfiler GSEA results using enrichmentMap app in Cytoscape? It seems t…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/noriakis/cpbnplot
Confirm the following by editin…