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stager
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0
votes
10
replies
1.2k
views
Two treatments, one control
DESeq2
stageR
5 months ago
alephreish
• 0
0
votes
2
replies
610
views
Swimming downstream: transcript fold changes
DEXSeq
stageR
13 months ago
jbono
▴ 10
0
votes
1
reply
740
views
stageR p-adj values of zero
stageR
updated 3.2 years ago by
Koen Van den Berge
▴ 180 • written 3.2 years ago by
giwa.ao
• 0
0
votes
1
reply
1.0k
views
stageR with input from DRIMSeq
DRIMSeq
stageR
updated 5.8 years ago by
Koen Van den Berge
▴ 180 • written 5.8 years ago by
sdvie
• 0
2
votes
4
replies
1.9k
views
stageR: Error in stageWiseAdjustment
stageR
rnaseqDTU
DRIMSeq
DEXSeq
5.9 years ago
d-joester
▴ 20
4
votes
4
replies
1.5k
views
Correct use of Nested/Stage-wise testing with limma/stageR for 3-group design.
limma
stageR
decideTests
updated 5.9 years ago by
Koen Van den Berge
▴ 180 • written 5.9 years ago by
maltethodberg
▴ 180
0
votes
3
replies
1.3k
views
Post-hoc filtering on the standard deviation in proportions
drimseq
rnaseqdtu
stager
updated 6.0 years ago by
Michael Love
43k • written 6.0 years ago by
Jack.Hearn
• 0
1
vote
5
replies
1.8k
views
Plotting Expression of Differential Transcripts plotDEXseq
DEXSeq
StageR
rnaseqDTU
updated 6.2 years ago by
Michael Love
43k • written 6.2 years ago by
rbenel
▴ 40
2
votes
9
replies
2.1k
views
stageR NA in getAdjustedPValues() (method=dtu)
drimseq
stageR
dtu
salmon rna seq
updated 6.4 years ago by
Koen Van den Berge
▴ 180 • written 6.4 years ago by
fiona.dick91
▴ 60
9 results • Page
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Answer: Cross-validation with multiple control subgroups in limma
by
Gordon Smyth
52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
by
Robert Castelo
★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS
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Aidan
▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
by
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For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
by
xiaofeiwang198266
• 0
Thanks for your reply!
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