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ebseq
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0
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561
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EBTest error please add gene/isoform names to the data matrix
EBSeq
3.9 years ago
lli2
• 0
0
votes
3
replies
891
views
Heatmap for ebseq2 output
ebseq
4.9 years ago
drkousi31
• 0
5
votes
1
reply
1.0k
views
DE analysis when large portion of transcriptome is changed
rna-seq
edger
ebseq
differential expression
updated 5.8 years ago by
Aaron Lun
★ 28k • written 5.8 years ago by
marhabaie
• 0
0
votes
0
replies
922
views
[EBSEQ] Strange NA values
ebseq
differential gene expression
7.8 years ago
jean.keller
▴ 10
0
votes
0
replies
922
views
[EBSeq] Normalization and DE genes detection
ebseq
normalization
differential gene expression
7.9 years ago
jean.keller
▴ 10
1
vote
1
reply
1.2k
views
EBSeq-HMM: retrieving expression paths for genes differing by time AND treatment
ebseq
ebseq-hmm
rna-seq
8.5 years ago
vieuphoria
▴ 10
0
votes
0
replies
905
views
Matching New Samples to Differential Expression Profile
differential expression
ebseq
rnaseq
8.8 years ago
jbarker2
• 0
0
votes
0
replies
1.4k
views
How to fully use the list of DEGs in non model species?
deseq2
gage
ebseq
rnaseq
8.8 years ago
jackipchiho
▴ 10
0
votes
2
replies
1.3k
views
EBSeq package gives NaN Values for EBMultiTest
differential expression
ebseq
rnaseq
9.0 years ago
jbarker2
• 0
0
votes
2
replies
2.8k
views
DE analysis with reference transcriptome
Sequencing
GO
Organism
edgeR
DESeq
EBSeq
Sequencing
GO
Organism
edgeR
DESeq
EBSeq
updated 9.9 years ago by
James W. MacDonald
65k • written 9.9 years ago by
Nicole Ertl
▴ 10
0
votes
1
reply
1.6k
views
TCC::ERROR: Need the design matrix for GLM
DifferentialExpression
Normalization
Cancer
edgeR
baySeq
DESeq
EBSeq
TCC
Normalization
updated 10.0 years ago by
Koji Kadota
▴ 10 • written 10.0 years ago by
Gordon Smyth
50k
0
votes
1
reply
1.7k
views
TCC::ERROR: Need the design matrix for GLM.
DifferentialExpression
Normalization
Cancer
edgeR
baySeq
DESeq
EBSeq
TCC
Normalization
updated 10.0 years ago by
Jianqiang SUN
▴ 10 • written 10.0 years ago by
Pankaj Agarwal
▴ 100
0
votes
0
replies
1.0k
views
EBSeq Results Affected By Outlying Values
EBSeq
EBSeq
10.3 years ago
Dario Strbenac
★ 1.5k
13 results • Page
1 of 1
Recent ...
Replies
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…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
camp
▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Votes
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
Comment: biomaRt : No lock file for BiocFileCache
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James W. MacDonald
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Michael Love
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Gordon Smyth
50k
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