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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 7.4 years ago by
Camila Orellana
▴ 10
0
votes
1
reply
610
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
41k • written 5.8 years ago by
bahlv
• 0
1
vote
5
replies
2.9k
views
steps to get up and down regulated genes using DESeq2
deseq2
without replicate
no replicates
updated 5.9 years ago by
Michael Love
41k • written 5.9 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
6.4 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 7.8 years ago by
Aaron Lun
★ 28k • written 7.8 years ago by
knipehf
• 0
3
votes
6
replies
1.2k
views
Question about edgeR usage with one case and multiple controls
edgeR
differential expression
without replicate
7.8 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
4.6k
views
DESeq2 analysis without Replicate
without Replicate
deseq2
updated 2.8 years ago by
Michael Love
41k • written 8.4 years ago by
Sushant Pawar
• 0
11 results • Page
1 of 1
Recent ...
Replies
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
pl23
• 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions
by
Michael Love
41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative?
by
Michael Love
41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks
by
ATpoint
★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Votes
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
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