gene set testing Posts

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Focused gene set tests

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Perform limma based gene-set testing for a two-group comparison in a microarray dataset regarding specific biological processes

limma mroast gene set testing agilent microarrays fry gene tests written 14 months ago by svlachavas • 740 • updated 14 months ago by Gordon Smyth ♦ 39k

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Pre-ranked camera gene set testing with edgeR results

limma edger camera gene set testing camerapr written 15 months ago by jamie.gearing • 40 • updated 15 months ago by Gordon Smyth ♦ 39k

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Do the gene set statistics of the ROAST paper correspond to those implemented in the .roastEffects R function?

limma statistics roast source code gene set testing written 15 months ago by Andrea Carenzo • 0

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GAGE function and the same.dir option

gage gene set testing written 18 months ago by Aurora • 10 • updated 18 months ago by Luo Weijun • 1.5k

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EGSEA usage with microarray data (with vooma)?

gsea gene set testing limma voom egsea vooma written 2.9 years ago by Pekka Kohonen • 190

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Gene set Testing with Limma for Agilent IDs probes?

annotation limma gene set testing agilent microarrays written 2.9 years ago by amalbouzid.ing • 0

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Test whether expression levels of two gene sets are significantly different

deseq2 R gene set testing gene expression written 3.1 years ago by Jon Bråte • 160

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Competitive gene set testing between two sets of genes

edger camera gene set testing written 3.4 years ago by le2336 • 20 • updated 3.4 years ago by Gordon Smyth ♦ 39k

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Gene Set Testing or GSEA for functional annotation of co-expressed ncRNA and coding genes

gene set analysis gsea ncrna gene set testing coexpression written 3.6 years ago by m.fletcher • 20

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Confused by results from CAMERA gene set testing

limma camera gene set testing written 3.6 years ago by claire.n.levy • 10

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Interpretation of mroast gene set analysis in R and appropriate use of the function barcode plot regarding a microarray dataset

limma kegg mroast gene set testing barcodeplot written 4.0 years ago by svlachavas • 740 • updated 4.0 years ago by Gordon Smyth ♦ 39k

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Possible implementation of roast/mroast for testing common DE patterns across two different experiments

bioconductor roast differential gene expression mroast gene set testing written 4.6 years ago by svlachavas • 740