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Hi,
I would like to use gsea function on a count matrix with NA. This is allowed by GSEA itself but I seem to not be able to use your tool when I have missing values. Do you have an option to ignore…
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### Description of feature
I noticed that in the dev version the GSEA parameter --gsea_gene_sets disappeared and now one should use --gene_sets_files. I'd have two suggestions:
1. For backward c…
aghr updated
5 months ago
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I know GSEA takes a while, but in the middle I get "disconnected from server" message. Is this a sign that it is effectively crashed or is it still going?
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### Discussed in https://github.com/aertslab/scenicplus/discussions/273
Originally posted by **rogercasalsfr** December 18, 2023
Hi everyone,
I am struggling to get the last step running sc…
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I am running the GSEA analysis and there is an error in missing row names of the gene_list although there is none and it fails.
gse_overrep
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Hello, when I use the example code "table
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Hello,
I am encountering an issue while using the gseKEGG function from the clusterProfiler package for GSEA enrichment analysis. I have provided a gene list containing just over 3000 genes, but the …
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right now gsea run is required, but actually it is not part of the core algorithm of scTriangulate but just for visuliazation purpouse.
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By default, `gsea-cli` sets **"gsea_home"** to user's `HOME` directory to write some cache files. Is there an option to set this to another directory when running the gsea-cli?
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Hi,
I am trying to use compareCluster to compare enrichment analysis of different RNA-seq made on Apis mellifera (Honeybee).
however, i have got an error message
_Error in check_gene_id(geneList…