Bioconductor GSEA

Showing : GSEA • reset

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359

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fgsea gsea

6 weeks ago • updated 4 weeks ago Gordon • 0

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213

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clusterProfiler annotation gseGO gsea OrgDb

updated 6 weeks ago by Guido Hooiveld ★ 3.9k • written 6 weeks ago by enee ▴ 10

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234

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msigdb gmt GSEA

written 7 weeks ago by Georg • 0

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6.6k

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GSEA GeneSetEnrichment DifferentialExpression

updated 3 months ago by ATpoint ★ 4.1k • written 2.1 years ago by nhaus ▴ 30

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1.3k

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enrichplot GSEA clusterProfiler

updated 6 months ago by Fatemeh • 0 • written 9 months ago by Cen • 0

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608

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gsea DESeq2

updated 6 months ago by ATpoint ★ 4.1k • written 6 months ago by Grace.Ciabattoni • 0

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620

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GSEA fgsea

9 months ago Cen • 0

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986

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GSEA voom limma

updated 9 months ago by Gordon Smyth 50k • written 10 months ago by manuelsokolov • 0

8 results • Page 1 of 1

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Comment: Help with running egsea() by James W. MacDonald 65k

Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…

Comment: Help with running egsea() by Chris • 0

Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…

Comment: Help with running egsea() by James W. MacDonald 65k

I don't understand the last question, but do look at the msigdb.gsets argument to `buildIdx` in the help page for that function.

Answer: Help with running egsea() by James W. MacDonald 65k

There are no arguments to `egsea.base`, as it is meant only as a helper function to return the different methods. In addition, if you are u…

Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0

I am working with mouse data. I don't know how to do this, but I will go through it. Can you help me with the second question? how do we …

Votes

Comment: Help with running egsea()

Answer: Trim/Filter out-of-bounds GRanges

Comment: Help with running egsea()

Answer: How to save the DEXSeq results

Awards • All

Popular Question to Malcolm Cook ★ 1.6k

Teacher to Gordon Smyth 50k