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DRIMseq
•
reset
0
votes
11
replies
1.5k
views
Issue during transcript variant analysis using rnaseqDTU-DRIMseq-DEXseq.
rnaseqDTU
DRIMseq
DEXseq
rna-seq
5.0 years ago
saddamhusain77
• 0
2
votes
9
replies
1.7k
views
stageR NA in getAdjustedPValues() (method=dtu)
drimseq
stageR
dtu
salmon rna seq
updated 5.7 years ago by
Koen Van den Berge
▴ 180 • written 5.7 years ago by
fiona.dick91
▴ 60
0
votes
5
replies
1.1k
views
DTU analysis with tximport-DRIM-Seq-DEXSeq-stageR workflow starting from StrinTie output
RNA-seq
DRIMSeq
DEXSeq
rnaseqDTU
2.6 years ago
bioinformatic_trainee
▴ 10
0
votes
5
replies
1.0k
views
DRIMSeq with technical replicates
DRIMSeq
R
DTU
technical replicates
deseq2
updated 3.7 years ago by
Kevin Blighe
★ 3.9k • written 3.7 years ago by
poecile.pal
• 0
0
votes
5
replies
1.4k
views
Error using DRIMSeq with Salmon count data
DRIMSeq
tximport
txdb
Salmon
updated 3.6 years ago by
Michael Love
41k • written 3.6 years ago by
Charlotte
• 0
2
votes
4
replies
1.6k
views
stageR: Error in stageWiseAdjustment
stageR
rnaseqDTU
DRIMSeq
DEXSeq
5.2 years ago
d-joester
▴ 20
3
votes
4
replies
1.0k
views
DRIMSeq: many NAs in results compared to DESeq2 ?
DESeq2
DRIMSeq
dtu
RNASeq
2.7 years ago
sbcn
▴ 80
0
votes
4
replies
1.3k
views
DEXSeq: samples$sample_id %in% colnames(counts) is not TRUE
DEXSeq
DRIMSeq
updated 22 months ago by
jeroen.gilis
▴ 90 • written 23 months ago by
phoebe1354
• 0
0
votes
4
replies
1.4k
views
DRIMSeq continious variable in design matrix - Error during precision estimation
DRIMSeq
dmPrecision
updated 13 months ago by
Mary-Ellen
• 0 • written 5.1 years ago by
fiona.dick91
▴ 60
4
votes
3
replies
1.4k
views
DEXSeq and DRIMSeq on paired samples?
DRIMSeq
DEXSeq
updated 5.5 years ago by
Gosia Nowicka
▴ 90 • written 5.5 years ago by
zoe.ward
• 0
0
votes
3
replies
638
views
DRIMseq error for paired sample analysis
DRIMSeq
12 months ago • updated 11 months ago
Luca
• 0
0
votes
3
replies
1.0k
views
Post-hoc filtering on the standard deviation in proportions
drimseq
rnaseqdtu
stager
updated 5.3 years ago by
Michael Love
41k • written 5.3 years ago by
Jack.Hearn
• 0
1
vote
2
replies
1.5k
views
Is it possible to get Isoform-level differential isoform usage form DRIMSeq?
DRIMSeq
splicing
differential isoform usage
updated 7.2 years ago by
Gosia Nowicka
▴ 90 • written 7.2 years ago by
kristoffer.vittingseerup
▴ 20
1
vote
2
replies
1.3k
views
Normalized transcript/exon counts for network analysis
drimseq
dexseq
wgcna
sva
updated 5.1 years ago by
Gosia Nowicka
▴ 90 • written 5.1 years ago by
maya.kappil
▴ 30
0
votes
2
replies
943
views
DRIMSeq + dmFilter
DEXSeq
DRIMSeq
3.0 years ago
Gaia
• 0
2
votes
2
replies
1.1k
views
rnaseqDTU DTU workflow - pots-hoc Filter
DTU
DRIMSeq
rnaseqDTU
updated 5.2 years ago by
Michael Love
41k • written 5.2 years ago by
fiona.dick91
▴ 60
2
votes
2
replies
658
views
Inconsistent Dirichlet-multinominal coefficient and Beta-Binominal coefficient for a transcript in DTU analysis.
rnaseqDTU
DRIMSeq
20 months ago
wangziwei0010
▴ 10
1
vote
1
reply
778
views
DEXSeq-DTU normalisation suggestion - scaledTPM vs dtuScaledTPM
tximport
DEXSeq-DTU
DRIMSeq
updated 3.8 years ago by
Michael Love
41k • written 3.8 years ago by
aleksandar.baburski.g
• 0
1
vote
1
reply
1.2k
views
DrimSeq: installation versions
drimseq
DTU
updated 6.7 years ago by
Martin Morgan
25k • written 6.7 years ago by
somseeprags
▴ 10
1
vote
1
reply
737
views
Calling a package specific function in a for loop
drimseq
swimming downstream
for loop
sapply
updated 5.3 years ago by
Martin Morgan
25k • written 5.3 years ago by
georgewwp
• 0
0
votes
1
reply
805
views
stageR with input from DRIMSeq
DRIMSeq
stageR
updated 5.1 years ago by
Koen Van den Berge
▴ 180 • written 5.1 years ago by
sdvie
• 0
1
vote
1
reply
777
views
Error in dmTest() from DRIMSeq package - tuQTL
DRIMSeq
tuQTL
updated 3.6 years ago by
Gosia Nowicka
▴ 90 • written 3.7 years ago by
iaradsouza1
• 0
0
votes
1
reply
319
views
DEXSeq DEXSeqDataSet count matrix duplication
DEXSeq
DRIMSeq
DEXSeqDataSet
columnduplication
4 months ago
NiKo
• 0
0
votes
0
replies
833
views
Error generating counts df for use with DRIMSeq/DEXseq
DRIMSeq
DEXSeq
3.0 years ago
jbono
▴ 10
0
votes
0
replies
631
views
Subset samples expressing genes for DEXSeq or DRIMSeq analysis
DEXSeq
DRIMSeq
3.9 years ago
alexis.weinreb
• 0
0
votes
0
replies
353
views
Estimating factors of unwanted variation for DTU analysis
RUVSeq
DRIMSeq
11 months ago
Luca
• 0
26 results • Page
1 of 1
Recent ...
Replies
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
Votes
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
Circumvent creating .ff files in the working directory when using genotype.Illumina() function
Answer: Problem with maplot {affy} method when using rma {affy} method output as its inp
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