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stageR
•
reset
0
votes
2
replies
374
views
Swimming downstream: transcript fold changes
DEXSeq
stageR
6 months ago
jbono
▴ 10
0
votes
1
reply
584
views
stageR p-adj values of zero
stageR
updated 2.6 years ago by
Koen Van den Berge
▴ 180 • written 2.6 years ago by
giwa.ao
• 0
0
votes
1
reply
834
views
stageR with input from DRIMSeq
DRIMSeq
stageR
updated 5.2 years ago by
Koen Van den Berge
▴ 180 • written 5.2 years ago by
sdvie
• 0
2
votes
4
replies
1.6k
views
stageR: Error in stageWiseAdjustment
stageR
rnaseqDTU
DRIMSeq
DEXSeq
5.3 years ago
d-joester
▴ 20
4
votes
4
replies
1.3k
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
▴ 180
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 5.6 years ago by
rbenel
▴ 40
2
votes
9
replies
1.8k
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: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Hervé Pagès
16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
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