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DEXSeq
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77
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how to do Differential splicing from SGSeq analysis
DEXSeq
SGSeq
9 days ago • updated 4 days ago
Sara
• 0
0
votes
3
replies
157
views
Different number of exons in reference genome affects DEXSeq analysis
DEXSeq
updated 3 days ago by
Alejandro Reyes
★ 1.9k • written 15 days ago by
Alessia
• 0
0
votes
1
reply
150
views
Adding columns to DEXSeqResults object
DEXSeq
updated 15 days ago by
Alejandro Reyes
★ 1.9k • written 17 days ago by
Clyde
• 0
0
votes
1
reply
108
views
ONT long-read RNA sequencing - data analysis options
DESeq2
LongRead
DEXSeq
IsoformSwitchAnalyzeR
RNASeq
updated 15 days ago by
Michael Love
41k • written 15 days ago by
09191919
• 0
0
votes
0
replies
132
views
DEXSeq plot error
DEXSeq
DEXSeqNAvalues
DEXseq
7 weeks ago
jean-christophe.helbling
• 0
2
votes
4
replies
407
views
DEXSeq: summarizeOverlaps() crashes Rstudio with too many samples
DEXSeq
3 months ago • updated 9 weeks ago
thomas.heigl.ibk
• 0
0
votes
2
replies
362
views
Swimming downstream: transcript fold changes
DEXSeq
stageR
5 months ago
jbono
▴ 10
1
vote
1
reply
384
views
DEXSeq DEXSeqDataSet count matrix duplication
DEXSeq
DRIMSeq
DEXSeqDataSet
columnduplication
6 months ago
NiKo
▴ 10
0
votes
3
replies
655
views
RNAseq (Deseq2 and Dexseq2) analysis on two time points with expected same effect
DEXSeq
RNA-seq
DESeq2
updated 8 months ago by
Alejandro Reyes
★ 1.9k • written 8 months ago by
Alice
• 0
0
votes
3
replies
776
views
Error with makeTxDbFromBiomart
DEXSeq
biomaRt
updated 8 months ago by
Hervé Pagès
16k • written 9 months ago by
anavmar1
• 0
0
votes
2
replies
558
views
DEXSeqDataSet object DEXSeqDataSetFromHTSeq Error: line number did not have 3 elements
DEXSeq
HTSeq
R
8 months ago • updated 7 months ago
yr542
• 0
8
votes
7
replies
1.8k
views
Scaling DEXSeq estimateDispersions for large datasets, glmGamPoi?
DESeq2
glmGamPoi
DEXSeq
updated 10 months ago by
alexandresegers
▴ 20 • written 18 months ago by
jeremymsimon
▴ 20
1
vote
5
replies
849
views
DEXSeq output included non-exist exons
DEXSeq
exon_definition
exon
updated 10 months ago by
Alejandro Reyes
★ 1.9k • written 10 months ago by
zhangpeng1202
• 0
0
votes
0
replies
380
views
Recommendation sought for differential exon usage of a single gene
isofor
DEXSeq
DifferentialSplicing
11 months ago
nick_brittain55
• 0
0
votes
0
replies
394
views
Error while performing DEXseq
DEXSeq
11 months ago
vipul14
• 0
15 results • Page
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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!
Comment: Too many significant genes when integrating gtex and tcga
by
Michael Love
41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
Answer: Too many significant genes when integrating gtex and tcga
by
James W. MacDonald
65k
See `?results`, in particular the lfcThreshold argument.
Comment: Once again a "Model matrix not full rank"
by
James W. MacDonald
65k
You already ran a temporal assay. Now you can compare each time point to the baseline. The interaction term is only applicable if you have…
Votes
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
stuck on unimplemented type 'list' in 'EncodeElement'
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