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stager
•
reset
0
votes
10
replies
630
views
Two treatments, one control
DESeq2
stageR
17 days ago • updated 5 days ago
alephreish
• 0
0
votes
2
replies
458
views
Swimming downstream: transcript fold changes
DEXSeq
stageR
8 months ago
jbono
▴ 10
0
votes
1
reply
633
views
stageR p-adj values of zero
stageR
updated 2.8 years ago by
Koen Van den Berge
▴ 180 • written 2.8 years ago by
giwa.ao
• 0
0
votes
1
reply
892
views
stageR with input from DRIMSeq
DRIMSeq
stageR
updated 5.4 years ago by
Koen Van den Berge
▴ 180 • written 5.4 years ago by
sdvie
• 0
2
votes
4
replies
1.7k
views
stageR: Error in stageWiseAdjustment
stageR
rnaseqDTU
DRIMSeq
DEXSeq
5.5 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 5.5 years ago by
Koen Van den Berge
▴ 180 • written 5.5 years ago by
maltethodberg
▴ 180
0
votes
3
replies
1.1k
views
Post-hoc filtering on the standard deviation in proportions
drimseq
rnaseqdtu
stager
updated 5.6 years ago by
Michael Love
42k • written 5.6 years ago by
Jack.Hearn
• 0
1
vote
5
replies
1.6k
views
Plotting Expression of Differential Transcripts plotDEXseq
DEXSeq
StageR
rnaseqDTU
updated 5.8 years ago by
Michael Love
42k • written 5.8 years ago by
rbenel
▴ 40
2
votes
9
replies
1.9k
views
stageR NA in getAdjustedPValues() (method=dtu)
drimseq
stageR
dtu
salmon rna seq
updated 6.0 years ago by
Koen Van den Berge
▴ 180 • written 6.0 years ago by
fiona.dick91
▴ 60
9 results • Page
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Comment: 'path' must be string
by
James W. MacDonald
66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string
by
cpierce2
• 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest
by
Robert
• 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta
by
Guido Hooiveld
★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta
by
Michael Love
42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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