Bioconductor Wide format

Showing : wide format • reset

8

votes

12

replies

7.2k

views

multiassayexperiment wide format TCGA

updated 6.3 years ago by Marcel Ramos 700 • written 6.3 years ago by mario.zanfardino ▴ 160

4

votes

2

replies

1.4k

views

multiassayexperiment summarizedexperiment wide format

updated 6.5 years ago by Levi Waldron ★ 1.1k • written 6.5 years ago by mario.zanfardino ▴ 160

2 results • Page 1 of 1

Recent ...

Replies

Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Gordon Smyth 52k

It is not possible to use both. estimateGLMRobustDisp() estimates negative binomial dispersions for each gene, whereas glmQLFit() estimates…

Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Andre • 0

Thank you. What is the difference between setting robust=TRUE in glmQLFit and estimateGLMRobustDisp? The paper i mentioned in the post used…

Comment: PCA of different bacterial species by Jeremy • 0

Your approach of using ~2500 single-copy orthologs and normalizing with VST or rlog for PCA is valid for exploring general clustering [pap…

Comment: RnBeads::combine() - error? by Urotree • 0

pheno <- rnb.set.arrays@pheno # Phenotypic data sites <- rnb.set.arrays@sites # CpG site definitions (data.frame) meth <- rnb.set…

Comment: RnBeads::combine() - error? by Urotree • 0

![enter image description here][1] [1]: /media/images/40d9778d-b044-4405-9b3d-2ba835f6 Hi, after I convert to RnBiseqSet, it shows "All…

Votes

scater/scran with TPMs from Salmon - counts?

Answer: enrichGOgradient color change

Awards • All

Popular Question to gingergeiger22 • 0