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Also known as [MSigDB C7](http://software.broadinstitute.org/gsea/msigdb/index.jsp). [Paper](
https://www.cell.com/immunity/fulltext/S1074-7613(15)00532-4)
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Sources of gene sets and libraries (not specific pathways but interesting)
1. [EnrichR](http://amp.pharm.mssm.edu/Enrichr/#stats)
2. [MSigDB](http://software.broadinstitute.org/gsea/msigdb/collectio…
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Reading to provide background information about existing large gene set curation projects and how they are used in enrichment analyses to improve the interpretation of large genomic datasets.
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## Bug report
### Expected behavior and actual behavior
When getting an URL with a query (`?`) contained in a file using _e.g._ `splitCsv()` the files specified using the query should be staged…
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So I'm trying to run enricher() on both the MSigDB Hallmark set and the C5 (GO) set, by doing the following:
```
m_t2g %
dplyr::select(gs_name, entrez_gene) %>% dplyr::distinct(gs_name, entr…
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Hello,
can you please tell me how did you create gene-set.txt file in your tutorial? Which software did you use and what is teh format of that file?
Thanks
Ana
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I run imt_gsea in linux command line:
~$ imt_gsea -i ~/cyf/IMAGEGENE/Imt_cth_z_reflect_pls/pls_analysis.pkl -g Allen_Brain_Atlas_up -o ~/cyf/IMAGEGENE/AHBA
2024-06-06 18:07:16,803: Performing GSE…
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@frhl These are comments/suggestions I wrote down when I was testing the current app version. I show them as checklist here but we can discuss to modify them as appropriate. I'm also starting to get i…
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Hi, I used "gseGO_CC_result