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Showing :
deseqdataset
•
reset
0
votes
2
replies
5.1k
views
Plots and Heat Maps not displaying in RGui Window
plot
heatmap
graphical
rnaseqgene
deseqdataset
9.0 years ago
greg.mulhearn
• 0
2
votes
10
replies
4.7k
views
DESeqDataSet 2 factors with a covariate
covariate
deseqdataset
Deseq2
multiple factor design
updated 8.7 years ago by
Michael Love
41k • written 8.7 years ago by
Lillyhchen
▴ 10
3
votes
4
replies
8.2k
views
DESeqDataSetFromMatrix giving error: "argument must be coercible to non-negative integer"
DESeqDataSet
DESeqDataSetFromMatrix
rnaseq
deseq2
7.8 years ago
ErickF
▴ 40
0
votes
2
replies
3.1k
views
Using RNA-Seq Workflow using Real Life FASTQ data - and Mouse Reference Genome
deseq2
deseqdataset
rnaseqgene
fastq
reference genome
updated 9.0 years ago by
James W. MacDonald
65k • written 9.0 years ago by
greg.mulhearn
• 0
5
votes
8
replies
3.3k
views
Large disk images of DESeqDataSet / SummarizedExperiment objects when using the save function
SummarizedExperiment
DESeqDataSet
GenomicRanges
DESeq2
save
updated 9.2 years ago by
Wolfgang Huber
★ 13k • written 9.2 years ago by
akaever
▴ 30
0
votes
2
replies
888
views
constructing a DESeqDataSet
deseq2
DESeqDataSet
updated 5.9 years ago by
Michael Love
41k • written 5.9 years ago by
linouhao
▴ 20
1
vote
3
replies
2.6k
views
deseq2 DESeqDataSet size when saved
deseq2
infrastructure
deseqdataset
importing
updated 5.6 years ago by
Michael Love
41k • written 5.6 years ago by
eric.blanc
• 0
0
votes
2
replies
964
views
Error when creating a DESeqDataSet object
deseq2
DESeqDataSet
updated 5.1 years ago by
Michael Love
41k • written 5.1 years ago by
colaneri
▴ 30
1
vote
4
replies
4.3k
views
Running DESeqDataSet with 4 factors?
summarizedexperiment
deseq2
deseqdataset
multiple factor design
differential gene expression
8.8 years ago
Lillyhchen
▴ 10
2
votes
1
reply
4.0k
views
DESeq2 error when creating the DESeqDataSet
deseq2
bioconductor
deseqdataset
r
summarizedexperiment
7.5 years ago
sebastian.lobentanzer
▴ 50
3
votes
7
replies
3.8k
views
Transcript level differential expression analysis
deseq2
deseqdataset
transcripts
updated 7.1 years ago by
Michael Love
41k • written 7.1 years ago by
tarun2
• 0
1
vote
2
replies
1.3k
views
DESeq2: different number of significant genes between DESeqDataSetFromMatrix and DESeqDataSetFromHTSeqCount
deseq2
deseqdatasetfrommatrix
deseqdataset
updated 6.4 years ago by
Michael Love
41k • written 6.4 years ago by
jillian.waters
• 0
12 results • Page
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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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