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without replicate
•
reset
1
vote
6
replies
2.7k
views
Can I use EdgeR log2(cpm) instead of voom log2(cpm) to be analyzed as microarray data?
limma
edger
timecourse
without replicate
voom
written 7.5 years ago by
Camila Orellana
▴ 10
0
votes
1
reply
619
views
BSmooth does give DMRs without no replicate data sets
bsmooth
without replicate
dimension
5.8 years ago
nilaycan
• 0
0
votes
3
replies
1.0k
views
time-series, no replicates, no control groupe
deseq2
time-series
without replicate
updated 5.8 years ago by
Michael Love
42k • written 5.8 years ago by
bahlv
• 0
1
vote
5
replies
3.0k
views
steps to get up and down regulated genes using DESeq2
deseq2
without replicate
no replicates
updated 6.0 years ago by
Michael Love
42k • written 6.0 years ago by
Tony
• 0
3
votes
6
replies
4.4k
views
Analyzing data without replicates using DiffBind
diffbind
bioconductor
differential binding analysis
without replicate
chipseq
6.5 years ago
Hesh
▴ 10
4
votes
5
replies
2.5k
views
edgeR- DE analysis with no replicates
edger
differential gene expression
without replicate
nested design
help
updated 7.9 years ago by
Aaron Lun
★ 28k • written 7.9 years ago by
knipehf
• 0
3
votes
6
replies
1.3k
views
Question about edgeR usage with one case and multiple controls
edgeR
differential expression
without replicate
7.9 years ago
gavin.oliver
• 0
0
votes
3
replies
1.4k
views
to call differential peaks among 4 peaksets all together using DiffBind
diffbind
without replicate
updated 8.1 years ago by
Gord Brown
▴ 650 • written 8.1 years ago by
yiweihe
• 0
2
votes
7
replies
2.8k
views
edgeR for with no Replicate
edger
without replicate
updated 8.4 years ago by
Yunshun Chen
▴ 840 • written 8.4 years ago by
Sushant Pawar
• 0
1
vote
1
reply
1.5k
views
edgeR for without Replicate
edger
without replicate
updated 8.4 years ago by
Aaron Lun
★ 28k • written 8.4 years ago by
Sushant Pawar
• 0
0
votes
10
replies
4.7k
views
DESeq2 analysis without Replicate
without Replicate
deseq2
updated 2.8 years ago by
Michael Love
42k • written 8.4 years ago by
Sushant Pawar
• 0
11 results • Page
1 of 1
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Replies
Comment: Help with running egsea()
by
Chris
• 0
I tried egsea.ma and got this error: gsa = egsea.ma(fit2, vector_group, probe_annotation, contrasts = contrast_matrix, gs.annots = gs.…
Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
angelathuynh5
• 0
Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…
Comment: Limma without eBayes, is it indistunguishable from Ordinary Least Square?
by
Gordon Smyth
50k
The formula given in the original question is correct and yours is not. Your formula isn't even constrained to be between 0 and 1. Here is …
Comment: Method to find pathways different between 2 groups
by
Gordon Smyth
50k
sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
by
James W. MacDonald
65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Votes
Answer: confused with tximport counts abundance using salmon input
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu
Answer: Extremely small p-values using Limma for proteomic data
Answer: How to save the DEXSeq results
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