Bioconductor Geneoverlap

Showing : geneoverlap • reset

0

votes

0

replies

394

views

GeneOverlap heatmaps

14 months ago Johanna • 0

0

votes

3

replies

1.1k

views

GeneOverlap multiple figures heatmap

updated 5.5 years ago by James W. MacDonald 68k • written 5.5 years ago by C T ▴ 140

0

votes

6

replies

2.3k

views

genomicranges geneoverlap findoverlaps

updated 9.4 years ago by Michael Lawrence ★ 11k • written 9.4 years ago by yao.h.1988 • 0

0

votes

0

replies

1.4k

views

GeneOverlap DEGgenes affymetrixchip bioconductor

10.4 years ago svlachavas ▴ 840

4 results • Page 1 of 1

Recent ...

Replies

Answer: Difference between logFC in limma-voom and weighted limma-voom by Gordon Smyth 52k

No, your formula is not correct, for several reasons. voom is always a weighted method, whether it includes sample weights or not. The samp…

Comment: emptyDrops new default alpha = Inf giving far fewer non-empty droplets than unde by Aaron Lun ★ 29k

It's all heuristic anyway, so it's not surprising to give or take a few thousand cells. I suspect you'd get that much variation if you fidd…

Comment: How to use limma to analyze complex temporal RNAseq data by Jiahao Tian • 0

Thank you so much! I would compare every two groups separately.

Comment: emptyDrops new default alpha = Inf giving far fewer non-empty droplets than unde by Peter Hickey ▴ 760

Ah, I'd forgotten about how the knee comes into the calculation. Your proposal does do a better job at finding the knee and the subsequent…

Comment: DEP R-package run_app ("TMT") spits this error: "Error: 'imputeMethods' is not a by Shajahan • 0

Thank you very much James. I corrected the code as you suggested and it fixed the eror. Shajahan

Votes

Answer: heatmap with batch effect

Answer: Limpa Pipeline Order

Answer: Should voomWithQualityWeights still be used when the sample-specific weights var

Awards • All