Showing : contrasts • reset
3
votes
3
replies
682
views
DESeq2: Contrast for two conditions combined versus one condition (A+B_vs_C)
DESeq2 contrasts
updated 9 months ago by ★ 4.6k • written 9 months ago by ▴ 10
2
votes
3
replies
675
views
edgeR, 3 x 2 design with a batch effect and contrasts
design edgeR contrasts
updated 10 months ago by 52k • written 10 months ago by • 0
0
votes
3
replies
1.2k
views
Multiple Testing When Using Multiple Contrasts/Comparisons in DESEQ2
MultipleComparison DESeq2 Genetics contrasts RNASeq
updated 19 months ago by 67k • written 19 months ago by • 0
1
vote
2
replies
764
views
Individual DESeq2 runs versus a single DESeq2 run with contrasts produce different results
contrasts DESeq2
20 months ago jovel_juan ▴ 30
3
votes
6
replies
1.5k
views
Question about making Contrasts for comparisons and assignment of values
edgeR contrasts limma design model.matrix
2.1 years ago mohammedtoufiq91 ▴ 10
1
vote
3
replies
882
views
Limma F-statistic identical for different comparison, why?
limma F-statistic contrasts
updated 2.2 years ago by 52k • written 2.2 years ago by • 0
3
votes
8
replies
4.5k
views
DESeq2 how to specify contrast to test difference of differences
DifferentialExpression contrasts interaction DESeq2
written 2.8 years ago by ▴ 10
0
votes
3
replies
1.8k
views
limma voom contrasts
contrasts limma voom
updated 2.9 years ago by 52k • written 2.9 years ago by ▴ 90
0
votes
1
reply
922
views
DESeq2 2x3 design contrast question
DESeq2 contrasts
updated 3.0 years ago by 43k • written 3.0 years ago by • 0
0
votes
2
replies
1.2k
views
limma voom; fitted lines, factors that aren't of interest, and hypothesis testing
topTable voom contrasts
3.4 years ago James • 0
0
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3
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1.3k
views
DESeq2: difficulty with contrasts and main effects
DESeq2 phyloseq contrasts
updated 3.5 years ago by ★ 4.0k • written 3.5 years ago by • 0
2
votes
8
replies
2.6k
views
DESeq2 numbers of DEGs not consistent with PCA plot
DifferentialExpression DESeq2 contrasts
3.7 years ago Jane ▴ 10
3
votes
8
replies
1.6k
views
Same contrasts returning different edgeR results
edger limma contrasts DGE
updated 5.1 years ago by 67k • written 5.1 years ago by • 0
0
votes
1
reply
1.3k
views
DESeq2 - how to run contrasts leaving out one factor, not just using the reference?
deseq2 contrasts reference level
updated 5.1 years ago by 43k • written 5.1 years ago by • 0
0
votes
0
replies
861
views
EdgeR: Transforming coefficients before testing for differential expression
edger contrasts model.matrix circadian
5.1 years ago ingerslev • 0
0
votes
1
reply
1.3k
views
DESeq2 very complex design - how extract contrasts of interest?
DESeq2 RNA-Seq Multifactorial Design GLM Contrasts
updated 5.2 years ago by 43k • written 5.2 years ago by • 0
2
votes
3
replies
1.6k
views
DESeq2 2x2 factorial design: find genes unique to factor A?
deseq2 deseq differential expression contrasts
updated 5.2 years ago by 43k • written 5.2 years ago by ▴ 180
0
votes
4
replies
1.2k
views
Setting up contrasts with 'limma', patient data, small number of repeats
limma nanostring contrasts
updated 5.4 years ago by 52k • written 5.4 years ago by • 0
0
votes
1
reply
847
views
DESeq2 compairson of 3 samples from 1 type
deseq2 multiple factor design contrasts experimental design
updated 5.7 years ago by 43k • written 5.7 years ago by • 0
3
votes
5
replies
1.7k
views
Experimental design RNAseq differential expression
edger limma design contrasts batch
updated 5.9 years ago by ★ 28k • written 5.9 years ago by ▴ 40
2
votes
6
replies
1.4k
views
Making sense out of makeContrasts and using coefficents for contrasts
edger contrasts
updated 6.0 years ago by 52k • written 6.0 years ago by • 0
21 results • Page 1 of 1
Recent ...
Replies
Comment: Unused arguments error without used arguments in GSVA? by 1sunmic2 • 0
It was due to the comma. Thank you!
Answer: Unused arguments error without used arguments in GSVA? by Axel Klenk ★ 1.1k
Hi, here is a good place to ask questions when encountering problems with GSVA. I cannot reproduce this behaviour with the current release…
Answer: Restricting differential binding analysis to only TSS-proximal regions by Aaron Lun ★ 28k
Seems reasonable to filter out windows outside of the TSS if you don't care about those events. IIRC the `discard` option will ignore any f…
Comment: Sample-specific methylation values using QSEA by User3088 • 0
Thanks Simon. I got the sample-specific methylation values by using '**samples=getSampleNames**' ``` result=makeTable(qs=prad_QSEAset, glm=…
Comment: input for singR function by iamin053 • 0
Hi Paria, I'm wondering if you were able to get an answer on this please. I would greatly appreciate any comments!
Votes
Answer: Unused arguments error without used arguments in GSVA?
Answer: Unused arguments error without used arguments in GSVA?
Answer: Unused arguments error without used arguments in GSVA?
Unused arguments error without used arguments in GSVA?
Answer: Is it always preferable to recount library sizes of DGEList object in edgeR afte
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