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THE step "## Calculate pathway enrichment score" in sample data:
#Call PathwayEnrichmentScore
Pathway_score = unCTC::PathwayEnrichmentScore(data_list =dataList,
…
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There is something seriously wrong with the Search GeneSets function in GeneWeaver. It is producing very few in any hits and those don't even have the query gene in them. I tried this with several dif…
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I implemented gsva on a small bulk RNA dataset and it worked well. However, when I implemented it on a large single-cell dataset along with msigdb genesets, the error occurred. My code and data type …
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Hi!
Do you have a dump for the extended datasets with co-regulated genes? The link in the report leads nowhere, I also didn't manage to find the data on my own.
Many thanks
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When testing the Shiny app, Data Input From File worked as before, whereas Data Input From Workspace resulted in the error message below (this *used* to work fine):
```
Error in validObject(.Objec…
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Anonymous genesets are intended to allow quick sharing or user testing of the application, but we want to encourage users to associate their genesets to an account for long-term storage. Therefore, we…
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Hello,
I am using the compareCluster function of clusterProfiler to do GSEA, and I then plot the results with the dotplot function of enrichplot.
While most of the parameters of the dotplot rema…
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The packer was born out of the need to build genes from the vagrant packer build. However, over time it grew in a problematic direction:
- current code is still a bit quick and dirty and not very t…
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We could show the number of results on the checkbox list of sources. This is an enhancement that could help users understand how the information is distributed across sources.
![Screenshot from 202…
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test_adata=ad[ad.obs['celltype'].isin(['T-GO01','T-GO05'])]
dds_meta=ov.bulk.pyDEG(test_adata.to_df().T)
dds_meta.drop_duplicates_index()
print('... drop_duplicates_index success')
treatment_gro…