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Showing :
normalized counts
•
reset
1
vote
6
replies
2.5k
views
Diffbind EdgeR and DESeq2 normalization
diffbind
normalized counts
7.8 years ago
GFM
▴ 20
2
votes
2
replies
1.8k
views
Analysis of shRNA screen data
shrna
edger
deseq2
differential expression
normalized counts
7.8 years ago • updated 7.7 years ago
Jane Merlevede
▴ 90
1
vote
2
replies
1.6k
views
cn.MOPS - reporting log normalized read counts as table
cn.mops
log
normalized counts
table
updated 6.8 years ago by
Günter Klambauer
▴ 540 • written 6.8 years ago by
falk.zakrzewski
• 0
4
votes
2
replies
1.2k
views
Normalize to additional variable (brain weight) in DESeq2
deseq2
cqn
normalization
normalized counts
updated 6.5 years ago by
Michael Love
41k • written 6.5 years ago by
mark.ebbert
• 0
1
vote
4
replies
1.5k
views
Normalized counts after fitting linear model with batch effects - edgeR
edger
batch effect
normalized counts
updated 6.3 years ago by
Ryan C. Thompson
★ 7.9k • written 6.3 years ago by
Yahan
• 0
0
votes
14
replies
4.3k
views
DESeq2 count normalization
deseq2
normalization
normalized counts
updated 6.1 years ago by
Michael Love
41k • written 6.1 years ago by
naets_matthias
• 0
4
votes
2
replies
7.7k
views
DESeq2 : normalized counts
rnaseq
deseq2
normalized counts
updated 5.9 years ago by
Michael Love
41k • written 5.9 years ago by
JoannaF
▴ 10
1
vote
2
replies
1.1k
views
scran/scater Normalized matrix
scran
scater
normalized counts
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
Radek
▴ 90
1
vote
3
replies
1.4k
views
DESeq2: Do basemean values take into account interaction effects?
deseq2
counts
normalized counts
updated 7.7 years ago by
Steve Lianoglou
★ 13k • written 7.7 years ago by
snamjoshi87
▴ 40
0
votes
2
replies
1.0k
views
Get normalized COUNTS Deseq2
deseq2
normalized counts
updated 5.4 years ago by
Steve Lianoglou
★ 13k • written 5.4 years ago by
anaQ
• 0
2
votes
1
reply
1.0k
views
Problems with Edge R normalization in same sample but using different ref genomes.
normalized counts
grch37
grch38
r bioconductor
6.6 years ago • updated 6.5 years ago
salvocomplicazioni1
• 0
0
votes
0
replies
1.4k
views
DESeq2: Extract mean normalized log2 counts by level
normalized counts
log2
5.6 years ago
agdif
▴ 10
12 results • Page
1 of 1
Recent ...
Replies
Answer: Dominance Index for Shotgun Metagenomics Data
by
Leo Lahti
▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
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…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
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)
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Leo Lahti
▴ 40
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James W. MacDonald
65k
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to
shepherl
3.8k
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Michael Love
41k
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