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DRIMseq
•
reset
1
vote
1
reply
514
views
DEXSeq DEXSeqDataSet count matrix duplication
DEXSeq
DRIMSeq
DEXSeqDataSet
columnduplication
8 months ago
NiKo
▴ 10
0
votes
0
replies
448
views
Estimating factors of unwanted variation for DTU analysis
RUVSeq
DRIMSeq
15 months ago
Luca
• 0
0
votes
3
replies
758
views
DRIMseq error for paired sample analysis
DRIMSeq
16 months ago • updated 15 months ago
Luca
• 0
2
votes
2
replies
774
views
Inconsistent Dirichlet-multinominal coefficient and Beta-Binominal coefficient for a transcript in DTU analysis.
rnaseqDTU
DRIMSeq
2.1 years ago
wangziwei0010
▴ 10
0
votes
4
replies
1.6k
views
DEXSeq: samples$sample_id %in% colnames(counts) is not TRUE
DEXSeq
DRIMSeq
updated 2.2 years ago by
jeroen.gilis
▴ 90 • written 2.2 years ago by
phoebe1354
• 0
0
votes
5
replies
1.4k
views
DTU analysis with tximport-DRIM-Seq-DEXSeq-stageR workflow starting from StrinTie output
RNA-seq
DRIMSeq
DEXSeq
rnaseqDTU
3.0 years ago
bioinformatic_trainee
▴ 10
3
votes
4
replies
1.2k
views
DRIMSeq: many NAs in results compared to DESeq2 ?
DESeq2
DRIMSeq
dtu
RNASeq
3.0 years ago
sbcn
▴ 80
0
votes
0
replies
939
views
Error generating counts df for use with DRIMSeq/DEXseq
DRIMSeq
DEXSeq
3.3 years ago
jbono
▴ 10
0
votes
2
replies
1.1k
views
DRIMSeq + dmFilter
DEXSeq
DRIMSeq
3.4 years ago • updated 3.3 years ago
Gaia
• 0
0
votes
5
replies
1.6k
views
Error using DRIMSeq with Salmon count data
DRIMSeq
tximport
txdb
Salmon
updated 4.0 years ago by
Michael Love
42k • written 4.0 years ago by
Charlotte
• 0
1
vote
1
reply
858
views
Error in dmTest() from DRIMSeq package - tuQTL
DRIMSeq
tuQTL
updated 4.0 years ago by
Gosia Nowicka
▴ 90 • written 4.0 years ago by
iaradsouza1
• 0
0
votes
5
replies
1.2k
views
DRIMSeq with technical replicates
DRIMSeq
R
DTU
technical replicates
deseq2
updated 4.0 years ago by
Kevin Blighe
★ 4.0k • written 4.0 years ago by
poecile.pal
• 0
1
vote
1
reply
871
views
DEXSeq-DTU normalisation suggestion - scaledTPM vs dtuScaledTPM
tximport
DEXSeq-DTU
DRIMSeq
updated 4.1 years ago by
Michael Love
42k • written 4.1 years ago by
aleksandar.baburski.g
• 0
0
votes
0
replies
710
views
Subset samples expressing genes for DEXSeq or DRIMSeq analysis
DEXSeq
DRIMSeq
4.2 years ago
alexis.weinreb
• 0
0
votes
11
replies
1.7k
views
Issue during transcript variant analysis using rnaseqDTU-DRIMseq-DEXseq.
rnaseqDTU
DRIMseq
DEXseq
rna-seq
5.3 years ago
saddamhusain77
• 0
0
votes
1
reply
891
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
1
vote
2
replies
1.5k
views
Normalized transcript/exon counts for network analysis
drimseq
dexseq
wgcna
sva
updated 5.4 years ago by
Gosia Nowicka
▴ 90 • written 5.4 years ago by
maya.kappil
▴ 30
0
votes
4
replies
1.6k
views
DRIMSeq continious variable in design matrix - Error during precision estimation
DRIMSeq
dmPrecision
updated 17 months ago by
Mary-Ellen
• 0 • written 5.5 years ago by
fiona.dick91
▴ 60
2
votes
4
replies
1.7k
views
stageR: Error in stageWiseAdjustment
stageR
rnaseqDTU
DRIMSeq
DEXSeq
5.5 years ago
d-joester
▴ 20
2
votes
2
replies
1.2k
views
rnaseqDTU DTU workflow - pots-hoc Filter
DTU
DRIMSeq
rnaseqDTU
updated 5.5 years ago by
Michael Love
42k • written 5.5 years ago by
fiona.dick91
▴ 60
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
1
reply
828
views
Calling a package specific function in a for loop
drimseq
swimming downstream
for loop
sapply
updated 5.7 years ago by
Martin Morgan
25k • written 5.7 years ago by
georgewwp
• 0
4
votes
3
replies
1.5k
views
DEXSeq and DRIMSeq on paired samples?
DRIMSeq
DEXSeq
updated 5.8 years ago by
Gosia Nowicka
▴ 90 • written 5.8 years ago by
zoe.ward
• 0
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
1
vote
1
reply
1.3k
views
DrimSeq: installation versions
drimseq
DTU
updated 7.0 years ago by
Martin Morgan
25k • written 7.0 years ago by
somseeprags
▴ 10
1
vote
2
replies
1.6k
views
Is it possible to get Isoform-level differential isoform usage form DRIMSeq?
DRIMSeq
splicing
differential isoform usage
updated 7.5 years ago by
Gosia Nowicka
▴ 90 • written 7.5 years ago by
kristoffer.vittingseerup
▴ 20
26 results • Page
1 of 1
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Replies
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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Lluís Revilla Sancho
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Michael Love
42k
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★ 1.1k
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