Bioconductor Seqgsea

Showing : seqgsea • reset

votes

replies

1.2k

views

limma deseq2 seqgsea sva deseq

5.5 years ago kentfung ▴ 20

votes

1.1k

views

seqgsea

updated 8.4 years ago by Martin Morgan 25k • written 8.4 years ago by jial2 • 0

votes

1.3k

views

goseq SeqGSEA goseq SeqGSEA

updated 9.1 years ago by Xi Wang • 0 • written 11.6 years ago by Julie Leonard ▴ 110

votes

replies

2.0k

views

Microarray GeneSetEnrichment PGSEA GSEABase GSRI SeqGSEA Microarray GeneSetEnrichment GSRI

updated 10.8 years ago by Steve Lianoglou ★ 13k • written 10.8 years ago by Leif Väremo ▴ 70

votes

replies

3.7k

views

Infrastructure PGSEA GSEABase SeqGSEA Infrastructure PGSEA GSEABase SeqGSEA

updated 10.8 years ago by Julian Gehring ★ 1.3k • written 10.8 years ago by enricoferrero ▴ 660

5 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?

Awards • All