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DRIMSeq
•
reset
2
votes
2
replies
253
views
Inconsistent Dirichlet-multinominal coefficient and Beta-Binominal coefficient for a transcript in DTU analysis.
rnaseqDTU
DRIMSeq
6 months ago
wangziwei0010
▴ 10
0
votes
4
replies
527
views
DEXSeq: samples$sample_id %in% colnames(counts) is not TRUE
DEXSeq
DRIMSeq
updated 8 months ago by
jeroen.gilis
▴ 70 • written 8 months ago by
phoebe1354
• 0
0
votes
5
replies
499
views
DTU analysis with tximport-DRIM-Seq-DEXSeq-stageR workflow starting from StrinTie output
RNA-seq
DRIMSeq
DEXSeq
rnaseqDTU
17 months ago
bioinformatic_trainee
▴ 10
3
votes
4
replies
549
views
DRIMSeq: many NAs in results compared to DESeq2 ?
DESeq2
DRIMSeq
dtu
RNASeq
18 months ago
sbcn
▴ 80
0
votes
0
replies
401
views
Error generating counts df for use with DRIMSeq/DEXseq
DRIMSeq
DEXSeq
22 months ago
jbono
▴ 10
0
votes
2
replies
478
views
DRIMSeq + dmFilter
DEXSeq
DRIMSeq
22 months ago
Gaia
• 0
0
votes
5
replies
804
views
Error using DRIMSeq with Salmon count data
DRIMSeq
tximport
txdb
Salmon
updated 2.5 years ago by
Michael Love
39k • written 2.5 years ago by
Charlotte
• 0
1
vote
1
reply
432
views
Error in dmTest() from DRIMSeq package - tuQTL
DRIMSeq
tuQTL
updated 2.5 years ago by
Gosia Nowicka
▴ 90 • written 2.5 years ago by
iaradsouza1
• 0
0
votes
5
replies
543
views
DRIMSeq with technical replicates
DRIMSeq
R
DTU
technical replicates
deseq2
updated 2.5 years ago by
Kevin Blighe
3.7k • written 2.5 years ago by
poecile.pal
• 0
1
vote
1
reply
455
views
DEXSeq-DTU normalisation suggestion - scaledTPM vs dtuScaledTPM
tximport
DEXSeq-DTU
DRIMSeq
updated 2.6 years ago by
Michael Love
39k • written 2.6 years ago by
aleksandar.baburski.g
• 0
0
votes
0
replies
322
views
Subset samples expressing genes for DEXSeq or DRIMSeq analysis
DEXSeq
DRIMSeq
2.7 years ago
alexis.weinreb
• 0
0
votes
11
replies
1.0k
views
Issue during transcript variant analysis using rnaseqDTU-DRIMseq-DEXseq.
rnaseqDTU
DRIMseq
DEXseq
rna-seq
3.8 years ago
saddamhusain77
• 0
0
votes
1
reply
512
views
stageR with input from DRIMSeq
DRIMSeq
stageR
updated 3.9 years ago by
Koen Van den Berge
▴ 180 • written 3.9 years ago by
sdvie
• 0
1
vote
2
replies
823
views
Normalized transcript/exon counts for network analysis
drimseq
dexseq
wgcna
sva
updated 3.9 years ago by
Gosia Nowicka
▴ 90 • written 3.9 years ago by
maya.kappil
▴ 20
0
votes
3
replies
748
views
DRIMSeq continious variable in design matrix - Error during precision estimation
DRIMSeq
dmPrecision
4.0 years ago
fiona.dick91
▴ 10
2
votes
4
replies
1.1k
views
stageR: Error in stageWiseAdjustment
stageR
rnaseqDTU
DRIMSeq
DEXSeq
4.0 years ago
d-joester
▴ 20
2
votes
2
replies
728
views
rnaseqDTU DTU workflow - pots-hoc Filter
DTU
DRIMSeq
rnaseqDTU
updated 4.0 years ago by
Michael Love
39k • written 4.0 years ago by
fiona.dick91
▴ 10
0
votes
3
replies
672
views
Post-hoc filtering on the standard deviation in proportions
drimseq
rnaseqdtu
stager
updated 4.1 years ago by
Michael Love
39k • written 4.1 years ago by
Jack.Hearn
• 0
1
vote
1
reply
450
views
Calling a package specific function in a for loop
drimseq
swimming downstream
for loop
sapply
updated 4.2 years ago by
Martin Morgan
25k • written 4.2 years ago by
georgewwp
• 0
4
votes
3
replies
851
views
DEXSeq and DRIMSeq on paired samples?
DRIMSeq
DEXSeq
updated 4.3 years ago by
Gosia Nowicka
▴ 90 • written 4.3 years ago by
zoe.ward
• 0
2
votes
9
replies
1.1k
views
stageR NA in getAdjustedPValues() (method=dtu)
drimseq
stageR
dtu
salmon rna seq
updated 4.5 years ago by
Koen Van den Berge
▴ 180 • written 4.5 years ago by
fiona.dick91
▴ 10
1
vote
1
reply
987
views
DrimSeq: installation versions
drimseq
DTU
updated 5.5 years ago by
Martin Morgan
25k • written 5.5 years ago by
somseeprags
▴ 10
1
vote
2
replies
1.1k
views
Is it possible to get Isoform-level differential isoform usage form DRIMSeq?
DRIMSeq
splicing
differential isoform usage
updated 6.0 years ago by
Gosia Nowicka
▴ 90 • written 6.0 years ago by
kristoffer.vittingseerup
▴ 20
23 results • Page
1 of 1
Recent ...
Replies
Comment: transcript name mapping between human and mouse
by
Eric
• 0
It works very well, and thanks for such a great answer! Because I use the old version gtf from GENECODE (vM12), the id version does not mat…
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
by
Bernardo
• 0
Just did that, thank you for the suggestion.
Comment: Empty ChipQC Report
by
Okan
• 0
Hi, I have the same issue. Have you found any solution or any reason why this is happening?
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
Gordon Smyth
47k
Am I understanding correctly that you have 24 RNA-seq libraries in total, 6 from the pooled samples and 18 from regular samples with biolog…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
k.roelfs
• 0
I'm sorry, I know it is kinda confusing... We have 6 pools in total: Phenotype A: T1a, T2, T1b, T1c Phenotype B: T1, T2 Each pool consist…
Votes
Answer: transcript name mapping between human and mouse
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
Volcano Plot in R
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
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