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Dear WebGestaltR team,
I am running your package and have been since quite some years with no issues. The package is used to enrich differentially regulated proteins coming from the candidates tabl…
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In Sep 2022 GSEA released a new Mouse MSigDB (v2022.1.Mm) list of genes.
This doesn't seem to be incorporated in the [`msigdbr`](https://github.com/igordot/msigdbr) package, which still uses ortholo…
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Trying to use GSEA function. My input is a .rnk file of log2 genes (all genes, ~ to what is done GSEA Java-based link) and a gmt file for pathways.
```
GSEA(input.ds = system.file('extdata', 'test…
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Hi, I think there is some sort of incompatibility between certain gene lists and the gseGO function (while using OrgDb = "org.Hs.eg.db".
Below is my code:
```
for (i in 1:nrow(celltype.compar…
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Hello, I am trying to do a GSEA with MAST on my own data but I am following the tutorial "Using MAST with RNASeq: MAIT Analysis"
I could conduct the GSEA with the function gsea = gseaAfterBoot() …
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您好!我根据notebook里面的提示找到了https://www.gsea-msigdb.org/gsea/msigdb/gene_families.jsp?ex=1,之后我点击Tumor Supression,跳转到了https://www.gsea-msigdb.org/gsea/msigdb/human/annotate.jsp 页面,我没有找到直接的数据集下载地址,我尝试了https:/…
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Hello! I'm currently working on single-cell GSEA analysis using gp.gsea. In your tutorial, a subset (bdata) was created using adata[adata.obs.seurat_annotations == "CD14 Mono"].copy(), and gp.gsea w…
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## Pathway analysis
### Data
- [x] Genes from PND8 vs PND15 (using `t-value`)
- [x] Genes from PND14 vs PNW8 (using `logFC`)
### GO database
- [x] GO BP
- [x] GO CC
- [x] GO MF
### Metho…
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I tried but it didn't work, so therefore I explicitly would like to ask: is it possible to use `compareCluster` with `gseKEGG `(or the generic `GSEA` function), analogous to the generic `enricher` fun…
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I get this error when when I run this code. I am using your input and code
dreep.data