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Hi~
Recently I have realized that there is a more hidden parameters called `maxGSSize`, which really influence the result of enricher/GSEA analysis. According to the raw code in DOSE,I think it may…
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add notebook to cytoscape workflow github
modify output files to be gsea or generic compliant
https://bioconductor.org/packages/release/bioc/html/fgsea.html
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Produce summary tables for results obtained from GSEA.
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请问如何使用GSEA软件(GSEA4.3.2, 单机版)的结果,并对其进行美化。想使用Broad GSEA软件的结果作为输入,然后美化图片。
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Hi all,
Loving the tool and have been playing around with it. I haven't delved too far into the gsVA/ssGSEA code, so that might be addressed there. Feel free to close if you do. But my thought is, …
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Using FGSEA to analyze data and create "fake" GSEA results files but putting all results into one file (with both positive and negative in the same file to reduce amount of files that I create).
Ru…
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Initial outline given by Rani attached.
[GSEA-gEAR.docx](https://github.com/IGS/gEAR/files/8343067/GSEA-gEAR.docx)
[DiffxPy](
https://diffxpy.readthedocs.io/en/latest/api/index.html#gene-set-enri…
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Dear all,
thanks for the terrific tool. I've been analysing my dataset following the excellent MAIT tutorial (https://www.bioconductor.org/packages/release/bioc/vignettes/MAST/inst/doc/MAITAnalysis.h…
EBosi updated
2 years ago
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在GSEA分析中,可以按NES的大小,将富集结果分为激活和抑制,该功能已经在`ridgeplot`实现,并且通过`split=".sign"`实现了分面效果
```
dotplot(gsea,split=".sign")+facet_grid(~.sign)
````
但是在可以显示网络关系的`emapplot`中并不能很好的体现出哪些是激活结果,哪些是抑制结果
因此我的建议是是否可以实…
swcyo updated
3 years ago
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Vignettes building, using the following command fails:
```
devtools::install_github("protViz/fgcz.gsea.ora", build_opts = c("--no-resave-data", "--no-manual"), build_vignettes = TRUE, force = TRUE)
…