Bioconductor Tcga cnv

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tcga cnv gene symbol coordinate

updated 2.5 years ago by James W. MacDonald 68k • written 10.1 years ago by NS ▴ 60

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TCGA CNV correlation between mRNA exprssion and CNV

updated 9.2 years ago by spulido99 • 0 • written 10.2 years ago by ycding ▴ 10

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cn.mops cnvtools tcga cnv

updated 9.6 years ago by Günter Klambauer ▴ 540 • written 9.6 years ago by vakul.mohanty ▴ 20

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Answer: Heatmap of rnaseq data with z-score scale by James W. MacDonald 68k

Without including the row names for the heatmap, it's impossible to know if the directionality is switched or not. Do note that the orderin…

Comment: Heatmap of rnaseq data with z-score scale by giovanna • 0

![Figure1][1]![Figure2][2] [1]: /media/images/d62918c5-2886-44ae-930d-91d292c3 [2]: /media/images/421df232-8a9c-4016-bc4a-431ca57a

Comment: parameters of filterByExpr by caroline.zanchi ▴ 10

Ah yes sorry :) But then I still do not understand why is it that on the plot I attached, the gene definitely has non-0 counts in less than…

Answer: Typo in the help of lmFit() by Gordon Smyth 52k

Thanks for the heads-up. > The _Details_ in the documentation of lmFit() still says that the default correlation is 0.75 Yes, you're righ…

Comment: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by caroline.zanchi ▴ 10

Thank you ! ![enter image description here][1] In the end I did ```r rn2 <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "GENENAME"…

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Comment: Check removeBatchEffect effectiveness

Answer: Check removeBatchEffect effectiveness

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Scholar to James W. MacDonald 68k