3
votes
4
answers
7.2k
views
5 follow
4
answers
DESeq2 installation error
installation written 2.5 years ago by seeker0 • updated 4 months ago by Cheng-Yuan Kao80
18
votes
4
answers
5.4k
views
4
answers
DESeq2 for ChIP-seq differential peaks
chipseq deseq deseq2 written 2.5 years ago by tangming200590 • updated 7 months ago by k.vitting.seerup20
4
votes
3
answers
4.4k
views
3
answers
Limma: how to get same output as topTable but for all the genes ?
limma toptable written 9.2 years ago by Daren Tan160 • updated 7 months ago by Gordon Smyth32k
5
votes
2
answers
4.2k
views
2
answers
Heatmap Plotting in R
R bioconductor heatmap written 2.6 years ago by Deepak Tanwar10
11
votes
11
answers
4.1k
views
18 follow
11
answers
readCufflinks problem with extdata
cummerbund written 8 months ago by biakemi40 • updated 5 months ago by markus.ball10
6
votes
3
answers
3.7k
views
3
answers
Confused in the usage of formula in DESeq or DESeq2
deseq deseq2 written 3.3 years ago by skyoflcz10 • updated 8 months ago by bio200160
22
votes
2
answers
3.7k
views
5 follow
2
answers
17
votes
4
answers
3.6k
views
10 follow
4
answers
Removing continuous covariate effects in limma analysis
microarray limma written 2.9 years ago by Pauly Lin80 • updated 5 months ago by Gordon Smyth32k
6
votes
2
answers
3.5k
views
8 follow
2
answers
remove microarray batch effects using Limma
microarray written 7.3 years ago by Xie, Zhi NIH/NHLBI [E]60 • updated 4 months ago by Gordon Smyth32k
13
votes
3
answers
3.4k
views
12 follow
3
answers
New function lfcShrink() in DESeq2
deseq2 written 9 months ago by Michael Love16k
3
votes
4
answers
3.3k
views
4
answers
Volcano plot labeling troubles
limma volcanoplot written 3.3 years ago by mccallionc4030 • updated 7 months ago by Gordon Smyth32k
3
votes
2
answers
3.0k
views
2
answers
Gene-gene correlation analysis with RNA-seq
edger written 4.7 years ago by Makis Motakis20 • updated 4 weeks ago by Gordon Smyth32k
4
votes
4
answers
2.9k
views
6 follow
4
answers
0
votes
1
answer
2.6k
views
1
answer
Limma, SAM and Fold Change Calculation
affy limma gcrma siggenes written 10.6 years ago by Peter White70 • updated 10 months ago by Gordon Smyth32k
2
votes
2
answers
2.5k
views
2
answers
BiocParallel/scater warning after move to R 3.4.0
biocparallel scater written 10 months ago by nhejazi0 • updated 7 months ago by andrew.blake20
1
vote
1
answer
2.4k
views
1
answer
0
votes
1
answer
2.3k
views
1
answer
removeBatchEffect options: design and covariates
limma removebatcheffect written 3.6 years ago by Rao,Xiayu530 • updated 5 months ago by Gordon Smyth32k
2
votes
6
answers
2.3k
views
6
answers
StringTie + Ballgown: handling biological replicates
ballgown stringtie written 24 months ago by bhawley199110 • updated 11 months ago by linda.boshans0
1
vote
2
answers
2.1k
views
2
answers
DiffBind for ATAC-seq
diffbind peak finding macs atac-seq macs2 written 18 months ago by igor20 • updated 11 months ago by kennethcondon200710
7
votes
1
answer
2.0k
views
1
answer
28
votes
7
answers
2.0k
views
14 follow
7
answers
[FIXED] Error in Gviz (actually, rtracklayer) | IdeogramTrack
rtracklayer gviz written 12 months ago by Ramiro Magno80 • updated 7 months ago by aina.jene10
8
votes
0
answers
1.9k
views
6 follow
0
answers
1
vote
2
answers
1.9k
views
2
answers
Ballgown up and down regulated genes
differential expression ballgown written 2.1 years ago by psbpedrobarbosa0 • updated 10 months ago by kapeelc0
9
votes
2
answers
1.8k
views
5 follow
2
answers
What to use: PCA or tSNE dimension reduction in DESeq2 analysis?
rnaseq deseq2 pca tsne written 7 months ago by s.w.vanderlaan20 • updated 7 months ago by Kushal K Dey10
15
votes
1
answer
1.8k
views
1
answer
Combining RangedData objects is broken (IRanges 2.8.1 with R version 3.3.3 RC)
iranges written 11 months ago by mdoering10 • updated 11 months ago by Martin Morgan ♦♦ 21k
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