Comments (2)
Junyan1996
commented on August 16, 2024
R version 4.0.3 (2020-10-10)
Platform: i386-w64-mingw32/i386 (32-bit)
Running under: Windows 10 x64 (build 19044)
BiocManager_1.30.22
clusterProfiler_3.18.1
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guidohooiveld
commented on August 16, 2024
Please use the latest version of R (=R-4.3.x) and Bioconductor (=3.18)! Development of packages goes on continuously, and you are using a very old version of R (and corresponding Bioconductor packages); these are more than 3 years old!
For example, I know that the API of the KEGG website has changed several times after June 2020, so this will never work in R-4.0.3!
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Related Issues (20)
- compareCluster's enrichGO difference in results when stating ont = "ALL" vs NULL HOT 1
- heatplot function; color scale is switched HOT 1
- How to split the results of compareCluster? HOT 1
- How to combine different compareCluster results? HOT 1
- feature request: add message suggesting to cite fgsea package when it's used for GSEA analysis HOT 3
- Count duplicate K Numbers (KEGG) for enrichKEGG?
- bitr报错 HOT 1
- something wrong of setReadable HOT 6
- Error in testForValidKeytype(x, keytype) : Invalid keytype: GOALL. Please use the keytypes method to see a listing of valid arguments. HOT 1
- gson 格式在最新版 enrichKEGG中出错 HOT 4
- ont = "BP" in enricher () function HOT 1
- OrgDb for maize HOT 1
- How to convert geneID from the enrichKEGG output from entrez to gene symbol? HOT 2
- enrichKEGG "No gene can be mapped" HOT 2
- All p-values are equal to 1 HOT 1
- compareCluster - Error in check_gene_id - but work perfectly with standar procedure (not using compareCluster) HOT 1
- How do I change the width of each coloum in the heatmap in the treeplot?
- Perform gseaplot2 using seurat DEG output.
- gseKEGG using KEGG database error (cannot open URL 'https://rest.kegg.jp/conv/ncbi=geneid/mmu': HTTP status was '400 Bad Request') HOT 1
- Different behaviour of gseGO upon setting nPerm=1000 HOT 2
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