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replicates
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2
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10
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5.1k
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DESEQ2 with 3 biological replicates for control and 1 biological replicate for treatment
DESEQ
deseq2
deseq
replicates
biologicalreplicates
8.4 years ago
wd
▴ 30
2
votes
3
replies
3.2k
views
DESeq2- preliminary study no replicates
deseq2
replicates
error
DESeqDataSetFromMatrix
updated 5.1 years ago by
Michael Love
41k • written 5.1 years ago by
Yonatan Amzaleg
• 0
1
vote
2
replies
2.8k
views
Limma: technical and biological replicates in proteomics data
limma
proteomics
replicates
updated 5.7 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
ivansilbern
• 0
5
votes
2
replies
2.6k
views
How to perform DEseq2 on datasets without replicates or merged replicates
deseq2
R
bioconductor
RNA_Seq
replicates
updated 4.4 years ago by
swbarnes2
★ 1.3k • written 4.4 years ago by
aishu.jp
▴ 30
2
votes
5
replies
2.3k
views
RNA-Seq analysis edgeR
edgeR
rna-seq
replicates
updated 9.2 years ago by
James W. MacDonald
65k • written 9.2 years ago by
eb0906
• 0
4
votes
4
replies
2.0k
views
Using duplicateCorrelation to handle replicate samples
limma
duplicatecorrelation
replicates
7.0 years ago
rwalke13
• 0
3
votes
2
replies
1.8k
views
Variation between technical replicates (DESeq2, batch effects)
rnaseq
deseq2
differential expression
batch effect
replicates
updated 4.6 years ago by
Michael Love
41k • written 4.6 years ago by
Nik dAK
▴ 10
3
votes
2
replies
1.6k
views
Uneven group sizes
deseq2
replicates
updated 7.2 years ago by
Michael Love
41k • written 7.3 years ago by
le2336
▴ 20
0
votes
1
reply
1.2k
views
RnBeads and technical replicates in differential analysis
rnbeads
replicates
updated 8.4 years ago by
rnbeads
• 0 • written 8.5 years ago by
Jon Manning
▴ 40
0
votes
0
replies
895
views
dexseq without replicates
replicates
8.7 years ago
efratdahan21
• 0
1
vote
13
replies
882
views
Small RNA-seq Analysis DESEQ2 : Unexpected Significance
conditions
replicates
SmallRNAData
DESeq2
updated 3 months ago by
Kevin Blighe
★ 3.9k • written 4 months ago by
samer
▴ 10
0
votes
2
replies
631
views
DESeq2 replicates in time course data
DESeq2
timecoursedata
replicates
updated 14 months ago by
Michael Love
41k • written 14 months ago by
fepesanz8
• 0
12 results • Page
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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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