Bioconductor Tcgabiolinks

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216

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TCGAbiolinks TCGA clinical TCGA-BRCA

written 6 weeks ago by BioinfoMug • 0

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140

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MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData

7 weeks ago • updated 5 weeks ago Giovanni Calice ▴ 160

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158

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TCGAMethylation450k MethylationArray TCGAbiolinks Tcga TCGAbiolinksGUI.data

8 weeks ago BioinfoMug • 0

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157

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TCGAbiolinks

10 weeks ago jain72744 • 0

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279

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TCGAbiolinks Survival

updated 10 weeks ago by Lluís Revilla Sancho ▴ 730 • written 10 weeks ago by tirordep • 0

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146

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TCGAbiolinks ChAMP

12 weeks ago Thalita • 0

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387

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TCGAbiolinks error GDC_prepare

6 months ago leon • 0

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245

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clinical TCGAbiolinks

9 months ago BioInfoBeginnerrr • 0

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1.2k

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TCGAbiolinks

11 months ago • updated 10 months ago Habil Zare ▴ 200

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850

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TCGAbiolinks limma

13 months ago • updated 12 months ago qiz218591 • 0

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614

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TCGAbiolinks BatchQC BatchEffect

updated 8 months ago by wrab425 • 0 • written 13 months ago by snijesh ▴ 20

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981

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TCGAWorkflowData TCGAbiolinks

updated 9 weeks ago by Marcel Ramos 690 • written 24 months ago by Emre • 0

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3.1k

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software error maftools tcgabiolinks

updated 5 weeks ago by snijesh ▴ 20 • written 6.6 years ago by Ramiro Magno ▴ 100

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Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0

Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …

Answer: PCA plot suggestions by Michael Love 41k

For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10

Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…

Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k

Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…

Answer: ATACseq merge peaks by ATpoint ★ 4.0k

That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…

Votes

Answer: Math expression in shapeCustom legend in EnhancedVolcano

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length

Comment: Deseq2. decontXcounts not integers. Useful alternative?

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)

biomaRt error: database disk image is malformed

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