Bioconductor Insilicomerging

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affy insilicomerging

5.8 years ago pratikshasharma47 • 0

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inSilicoMerging microarray affymetrix microarrays

updated 6.1 years ago by James W. MacDonald 67k • written 6.1 years ago by Adam_M • 0

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insilicomerging error insilicodb expressionset

8.0 years ago andreas.pittroff • 0

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MDSplot geneexpression insilicomerging

updated 8.8 years ago by James W. MacDonald 67k • written 8.8 years ago by Shamim Sarhadi ▴ 20

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inSilicoMerging doubleannotation affymetrix microarrays limma inSilicoDB

9.4 years ago svlachavas ▴ 840

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combine expresiondataset insilicomerging

9.5 years ago alakatos ▴ 130

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insilicomerging batcheffect limma differential gene expression bioconductor

updated 9.5 years ago by Aaron Lun ★ 28k • written 9.5 years ago by svlachavas ▴ 840

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insilicomerging

9.6 years ago carol white ▴ 680

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frma bioconductor batcheffect Primeview insilicomerging

updated 9.8 years ago by Matthew McCall ▴ 830 • written 9.8 years ago by svlachavas ▴ 840

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inSilicoMerging

10.2 years ago Li Liu ▴ 100

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inSilicoMerging inSilicoMerging

updated 10.7 years ago by Quentin De Clerck ▴ 10 • written 10.7 years ago by François Lefebvre ▴ 50

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inSilicoMerging inSilicoMerging

updated 11.5 years ago by Dan Tenenbaum ★ 8.2k • written 11.5 years ago by Li Liu ▴ 100

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Colon hgu133a2 hgu133plus2 limma inSilicoMerging Colon hgu133a2 hgu133plus2 limma

11.6 years ago Ed Siefker ▴ 230

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Comment: How can I generate a heatmap and clustering of differentially expressed genes in by Renuka • 0

Thanks Kelvin i had same doubt .Do i need to do log2 (FPKMcounts) for this

Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by georgeyu703 • 0

Michael, Thank you very much!

Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by Michael Love 43k

Yes, with the knowledge that, it is expected to be underpowered.

Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by georgeyu703 • 0

Thank you, Michael. How? Could you provide more details? Can I just do it as usual, I mean to include batch in the model?

Answer: Is there a way to do DEG analysis across two batches sharing one sample only? by Michael Love 43k

The short answer is yes, you can use even a single sample to estimate the batch effect (and therefore control for it in otherwise confounde…

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Answer: SingleCellExperiment convenience function for metadata+expression?

How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.

Answer: EdgeR Biological CVs

Answer: Error in download.file for TCGAutils::symbolsToRanges

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