Showing : pgsea • reset
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Extract info from smc object
PGSEA smc object
7.0 years ago da.de ▴ 30
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PGSEA Steps Using Bioconductor
microarray pgsea
updated 8.9 years ago by ★ 8.2k • written 8.9 years ago by • 0
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Running the GSEA algorithm
Microarray GeneSetEnrichment PGSEA GSEABase GSRI SeqGSEA Microarray GeneSetEnrichment GSRI
updated 10.8 years ago by ★ 13k • written 10.8 years ago by ▴ 70
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Running the GSEA algorithm
Infrastructure PGSEA GSEABase SeqGSEA Infrastructure PGSEA GSEABase SeqGSEA
updated 10.8 years ago by ★ 1.3k • written 10.8 years ago by ▴ 660
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[Rocky] - R code for PGSEA package to identify differentially expressed genes
GO affy limma GLAD PGSEA GSEABase GO affy limma GLAD PGSEA GSEABase
12.9 years ago Valerie Obenchain ★ 6.8k
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PGSEA and smcPlot
GO hgu133plus2 PGSEA GO hgu133plus2 PGSEA
13.4 years ago Valerie Obenchain ★ 6.8k
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1.1k
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PGSEA and smcPlot
GO hgu133plus2 PGSEA GO hgu133plus2 PGSEA
13.5 years ago Iain Gallagher ▴ 930
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969
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PGSEA and Ruuid
Ruuid PGSEA Ruuid PGSEA
16.0 years ago Daniel Klevebring ▴ 80
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Loading the PGSEA package.
PGSEA PGSEA
updated 16.0 years ago by ▴ 90 • written 16.0 years ago by ▴ 20
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3
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2.3k
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a couple of questions on PGSEA package and GSEA
PGSEA PGSEA
updated 16.4 years ago by ▴ 210 • written 16.4 years ago by ★ 1.2k
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2
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1.4k
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ENTREZ identifiers for PGSEA
GO lumi PGSEA GO lumi PGSEA
updated 16.5 years ago by ▴ 90 • written 16.5 years ago by ▴ 370
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PGSEA question
probe PGSEA probe PGSEA
updated 16.9 years ago by ▴ 210 • written 16.9 years ago by ▴ 70
12 results • Page 1 of 1
Recent ...
Replies
Comment: Newbie Question - adding metadata to an analysis by James W. MacDonald 67k
You don't need to generate an `ExpressionSet`, as you already have a `GeneFeatureSet`, which extends `eSet` and is a better fit for what yo…
Comment: Newbie Question - adding metadata to an analysis by Bryan H • 0
Thanks for the documentation. I have most of it working, except for the most critical step - incorporating the new metadata with the datase…
Comment: Diffbind interpretation of data - fold change by Vera • 0
Thank you for confirming that the foldchange is log2
Comment: Diffbind interpretation of data - fold change by Vera • 0
This solved it!
Comment: Diffbind interpretation of data - fold change by Vera • 0
Perfect! Thank you so much!
Votes
Answer: Considerations behind the choice of RNAseq Differential Expression Analysis Tool
A: goana limma- extract list of DE genes and genes in the enriched GO terms?
Answer: Package `not available for Bioconductor version '3.20'` when it should be
Comment: How do I fix an odd voom plot in a combined dataset?
Comment: How do I fix an odd voom plot in a combined dataset?
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