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stager
•
reset
0
votes
2
replies
348
views
Swimming downstream: transcript fold changes
DEXSeq
stageR
5 months ago
jbono
▴ 10
0
votes
1
reply
575
views
stageR p-adj values of zero
stageR
updated 2.5 years ago by
Koen Van den Berge
▴ 180 • written 2.5 years ago by
giwa.ao
• 0
0
votes
1
reply
825
views
stageR with input from DRIMSeq
DRIMSeq
stageR
updated 5.1 years ago by
Koen Van den Berge
▴ 180 • written 5.1 years ago by
sdvie
• 0
2
votes
4
replies
1.6k
views
stageR: Error in stageWiseAdjustment
stageR
rnaseqDTU
DRIMSeq
DEXSeq
5.2 years ago
d-joester
▴ 20
4
votes
4
replies
1.2k
views
Correct use of Nested/Stage-wise testing with limma/stageR for 3-group design.
limma
stageR
decideTests
updated 5.3 years ago by
Koen Van den Berge
▴ 180 • written 5.3 years ago by
maltethodberg
▴ 170
0
votes
3
replies
1.0k
views
Post-hoc filtering on the standard deviation in proportions
drimseq
rnaseqdtu
stager
updated 5.4 years ago by
Michael Love
41k • written 5.4 years ago by
Jack.Hearn
• 0
1
vote
5
replies
1.5k
views
Plotting Expression of Differential Transcripts plotDEXseq
DEXSeq
StageR
rnaseqDTU
updated 5.5 years ago by
Michael Love
41k • written 5.5 years ago by
rbenel
▴ 40
2
votes
9
replies
1.7k
views
stageR NA in getAdjustedPValues() (method=dtu)
drimseq
stageR
dtu
salmon rna seq
updated 5.8 years ago by
Koen Van den Berge
▴ 180 • written 5.8 years ago by
fiona.dick91
▴ 60
8 results • Page
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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
James W. MacDonald
65k
Are you commenting on the OP's question, or adding a different question? If the latter, please start a new post rather than piggybacking on…
Answer: Math expression in shapeCustom legend in EnhancedVolcano
by
James W. MacDonald
65k
Use `bquote`. See section 4.6 in [the vignette][1]. [1]: https://bioconductor.org/packages/release/bioc/vignettes/EnhancedVolcano/in…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
SamGG
▴ 350
I was thinking about removing unwanted variations at the sample level (ie a transformation shared across genes) not at the gene level. Corr…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
James W. MacDonald
65k
That's an assumption used for normalization of a sample, not an assumption you can use for an individual model. We always normalize to atte…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
SamGG
▴ 350
Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…
Votes
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
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