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Showing :
deseqdataset
•
reset
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
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 8.8 years ago by
Michael Love
41k • written 8.8 years ago by
Lillyhchen
▴ 10
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
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
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
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
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
0
votes
2
replies
973
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
0
votes
2
replies
898
views
constructing a DESeqDataSet
deseq2
DESeqDataSet
updated 5.9 years ago by
Michael Love
41k • written 5.9 years ago by
linouhao
▴ 20
12 results • Page
1 of 1
Recent ...
Replies
Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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