Bioconductor Makecontrasts

Showing : makecontrasts • reset

votes

replies

5.0k

views

limma model.matrix makecontrasts

updated 5.8 years ago by Gordon Smyth 50k • written 5.8 years ago by enricoferrero ▴ 660

votes

replies

4.2k

views

limma microarray interaction model multiple factor design makeContrasts

updated 8.1 years ago by Aaron Lun ★ 28k • written 8.1 years ago by svlachavas ▴ 830

votes

replies

1.3k

views

designmatrices differentialexpression makeContrasts limma model.matrix

2.0 years ago mohammedtoufiq91 ▴ 10

votes

replies

4.9k

views

limma design matrix makecontrasts multiple comparisons

7.2 years ago annabelle.congras ▴ 10

votes

replies

2.2k

views

contrast matrix toptable makecontrasts differential gene expression

6.6 years ago stinehedensted • 0

votes

replies

1.2k

views

limma model.matrix makecontrasts

7.1 years ago TFony ▴ 10

votes

replies

1.9k

views

diffrential expression limma makeContrasts

updated 5.8 years ago by Gordon Smyth 50k • written 5.8 years ago by S.Bamopoulos ▴ 10

votes

replies

2.3k

views

limma contrast missing data lmfit makecontrasts

updated 6.6 years ago by Gordon Smyth 50k • written 6.7 years ago by wewolski ▴ 10

vote

replies

1.4k

views

edger makecontrasts timecourse

updated 7.4 years ago by Ryan C. Thompson ★ 7.9k • written 7.4 years ago by aec ▴ 90

vote

replies

1.3k

views

limma toptable makecontrasts contrast matrix

updated 6.8 years ago by Ryan C. Thompson ★ 7.9k • written 6.8 years ago by hoe • 0

vote

replies

862

views

microarray dge matrix makecontrasts limma

updated 3.8 years ago by Gordon Smyth 50k • written 3.8 years ago by June. ▴ 10

vote

replies

1.1k

views

makeContrasts edgeR

updated 2.7 years ago by Steve Lianoglou ★ 13k • written 2.7 years ago by HS ▴ 10

votes

727

views

deseq2 makecontrasts

updated 6.4 years ago by Michael Love 41k • written 6.4 years ago by samuel.quentin • 0

votes

replies

1.4k

views

edger makecontrasts

7.9 years ago xiaoaozqd • 0

votes

replies

1.6k

views

rnaseq edger makecontrasts

updated 6.9 years ago by Aaron Lun ★ 28k • written 6.9 years ago by wangzhang1988 • 0

votes

replies

922

views

rnaseq edgeR makecontrasts interactions

updated 5.8 years ago by Aaron Lun ★ 28k • written 5.8 years ago by David R ▴ 90

16 results • Page 1 of 1

Recent ...

Replies

Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Robert Castelo ★ 3.2k

Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…

Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0

I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…

Answer: Cannabis and KEGGgraph by deeenes ▴ 30

Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…

Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k

I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…

Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10

Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…

Votes

Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

Awards • All

Scholar to Robert Castelo ★ 3.2k

Popular Question to James W. MacDonald 65k