Bioconductor Limma-voom

Showing : limma-voom • reset

votes

replies

933

views

variancePa variancePartition limma-voom dream

updated 13 months ago by Gordon Smyth 50k • written 14 months ago by Le • 0

vote

replies

882

views

limma limma-voom StatisticalMethod

updated 14 months ago by Gordon Smyth 50k • written 14 months ago by jay • 0

votes

replies

860

views

limma limma-trend limma-voom

updated 3 months ago by floriandeckert ▴ 30 • written 17 months ago by hainct • 0

vote

replies

628

views

limma-voom smooth-quantile-normalization quantro

21 months ago raf4 ▴ 20

votes

replies

2.0k

views

limma limma-voom

updated 12 months ago by blackdesgin • 0 • written 6.1 years ago by SPbeginner • 0

votes

replies

1.3k

views

limma limma-voom rnaseq voom

updated 2.6 years ago by Gordon Smyth 50k • written 2.6 years ago by taur.vil • 0

votes

replies

1.5k

views

deseq2 limma voom limma-voom rnaseq

updated 5.4 years ago by Gordon Smyth 50k • written 5.4 years ago by bharata1803 ▴ 60

votes

replies

2.5k

views

limma-voom duplicatecorrelation random effects

updated 5.5 years ago by Gordon Smyth 50k • written 5.5 years ago by tcalvo ▴ 90

votes

replies

2.0k

views

limma-voom deseq2 EdgeR

updated 5.5 years ago by Steve Lianoglou ★ 13k • written 5.5 years ago by Raymond ▴ 20

vote

replies

1.8k

views

rna-seq time series patient limma-voom

updated 5.6 years ago by Aaron Lun ★ 28k • written 5.6 years ago by aec ▴ 90

votes

replies

1.7k

views

limma limma-voom limma design matrix confounders

updated 5.8 years ago by Aaron Lun ★ 28k • written 5.8 years ago by S.Bamopoulos ▴ 10

votes

replies

1.8k

views

limma limma-voom

updated 6.1 years ago by Gordon Smyth 50k • written 6.1 years ago by Peter Langfelder ★ 3.0k

votes

replies

2.1k

views

limma-voom design matrix limma time-course limma design matrix limma

6.1 years ago SPbeginner • 0

votes

replies

1.2k

views

quantile normalization limma-voom

updated 6.2 years ago by Gordon Smyth 50k • written 6.2 years ago by bilcodygm • 0

votes

4.0k

views

voom limma-voom voomwithqualityweights rna-seq

updated 6.2 years ago by Matthew Ritchie ▴ 1000 • written 6.2 years ago by anne.biton ▴ 20

votes

replies

1.2k

views

limma limma-voom goseq

updated 6.2 years ago by Gordon Smyth 50k • written 6.2 years ago by joelrosa • 0

votes

replies

1.1k

views

limma-voom rnaseq normalization

6.3 years ago bilcodygm • 0

votes

replies

1.1k

views

rnaseq edger limma-voom

updated 6.3 years ago by Michael Love 41k • written 6.3 years ago by bilcodygm • 0

votes

replies

1.3k

views

limma edger voom voomWithQualityWeights limma-voom

updated 6.4 years ago by Gordon Smyth 50k • written 6.4 years ago by Guido Hooiveld ★ 3.9k

votes

replies

1.7k

views

limma-voom voom limma rna-seq

updated 6.5 years ago by Aaron Lun ★ 28k • written 6.5 years ago by vd4mmind • 0

vote

replies

1.4k

views

salmon tximport limma-voom

updated 6.6 years ago by Michael Love 41k • written 6.6 years ago by Sandip Darji ▴ 30

vote

replies

2.4k

views

normalization sva limma-voom

updated 6.8 years ago by Gordon Smyth 50k • written 6.8 years ago by aec ▴ 90

votes

replies

2.5k

views

limma-voom sva duplicatecorrelation

updated 6.8 years ago by sina.nassiri ▴ 130 • written 6.8 years ago by aec ▴ 90

votes

replies

4.7k

views

voom limma-voom tximport edger

updated 7.1 years ago by Ryan C. Thompson ★ 7.9k • written 7.1 years ago by johnmcma ▴ 10

votes

replies

3.0k

views

limma limma-voom limma paired analysis limma contrast matrix

updated 7.1 years ago by Aaron Lun ★ 28k • written 7.1 years ago by gregory.l.stone ▴ 10

votes

replies

1.8k

views

rnaseq limma limma-voom Tutorial

updated 7.1 years ago by Aaron Lun ★ 28k • written 7.1 years ago by icxa0409 • 0

votes

replies

1.2k

views

edger limma-voom voom

updated 7.2 years ago by Aaron Lun ★ 28k • written 7.2 years ago by gregory.l.stone ▴ 10

vote

replies

1.7k

views

limma limma-voom

updated 7.2 years ago by Aaron Lun ★ 28k • written 7.2 years ago by gregory.l.stone ▴ 10

vote

replies

1.7k

views

limma limma design matrix limma contrast matrix limma paired analysis limma-voom

updated 7.2 years ago by Gordon Smyth 50k • written 7.2 years ago by gregory.l.stone ▴ 10

votes

replies

1.4k

views

limma-voom rnaseq differential gene expression

7.6 years ago Javier Gutierrez-Achury • 0

votes

replies

2.6k

views

edger limma-voom paired samples

7.6 years ago aec ▴ 90

31 results • Page 1 of 1

Recent ...

Replies

Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k

> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …

Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10

With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.

Answer: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k

Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…

Comment: get BM error by James W. MacDonald 65k

I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…

Votes

A: How to know if I should use voomWithQualityWeights() or not?

A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom

Answer: Log-cpm values from limma

Awards • All

Supporter to Jonathan ▴ 10