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DRIMseq
•
reset
1
vote
1
reply
437
views
DEXSeq DEXSeqDataSet count matrix duplication
DEXSeq
DRIMSeq
DEXSeqDataSet
columnduplication
7 months ago
NiKo
▴ 10
0
votes
0
replies
407
views
Estimating factors of unwanted variation for DTU analysis
RUVSeq
DRIMSeq
14 months ago
Luca
• 0
0
votes
3
replies
699
views
DRIMseq error for paired sample analysis
DRIMSeq
14 months ago
Luca
• 0
2
votes
2
replies
712
views
Inconsistent Dirichlet-multinominal coefficient and Beta-Binominal coefficient for a transcript in DTU analysis.
rnaseqDTU
DRIMSeq
23 months ago
wangziwei0010
▴ 10
0
votes
4
replies
1.5k
views
DEXSeq: samples$sample_id %in% colnames(counts) is not TRUE
DEXSeq
DRIMSeq
updated 2.0 years ago by
jeroen.gilis
▴ 90 • written 2.1 years ago by
phoebe1354
• 0
0
votes
5
replies
1.3k
views
DTU analysis with tximport-DRIM-Seq-DEXSeq-stageR workflow starting from StrinTie output
RNA-seq
DRIMSeq
DEXSeq
rnaseqDTU
2.8 years ago
bioinformatic_trainee
▴ 10
3
votes
4
replies
1.1k
views
DRIMSeq: many NAs in results compared to DESeq2 ?
DESeq2
DRIMSeq
dtu
RNASeq
2.9 years ago
sbcn
▴ 80
0
votes
0
replies
890
views
Error generating counts df for use with DRIMSeq/DEXseq
DRIMSeq
DEXSeq
3.2 years ago
jbono
▴ 10
0
votes
2
replies
1.0k
views
DRIMSeq + dmFilter
DEXSeq
DRIMSeq
3.2 years ago
Gaia
• 0
0
votes
5
replies
1.5k
views
Error using DRIMSeq with Salmon count data
DRIMSeq
tximport
txdb
Salmon
updated 3.8 years ago by
Michael Love
42k • written 3.8 years ago by
Charlotte
• 0
1
vote
1
reply
819
views
Error in dmTest() from DRIMSeq package - tuQTL
DRIMSeq
tuQTL
updated 3.8 years ago by
Gosia Nowicka
▴ 90 • written 3.9 years ago by
iaradsouza1
• 0
0
votes
5
replies
1.1k
views
DRIMSeq with technical replicates
DRIMSeq
R
DTU
technical replicates
deseq2
updated 3.9 years ago by
Kevin Blighe
★ 3.9k • written 3.9 years ago by
poecile.pal
• 0
1
vote
1
reply
838
views
DEXSeq-DTU normalisation suggestion - scaledTPM vs dtuScaledTPM
tximport
DEXSeq-DTU
DRIMSeq
updated 4.0 years ago by
Michael Love
42k • written 4.0 years ago by
aleksandar.baburski.g
• 0
0
votes
0
replies
674
views
Subset samples expressing genes for DEXSeq or DRIMSeq analysis
DEXSeq
DRIMSeq
4.0 years ago
alexis.weinreb
• 0
0
votes
11
replies
1.6k
views
Issue during transcript variant analysis using rnaseqDTU-DRIMseq-DEXseq.
rnaseqDTU
DRIMseq
DEXseq
rna-seq
5.2 years ago • updated 5.1 years ago
saddamhusain77
• 0
0
votes
1
reply
847
views
stageR with input from DRIMSeq
DRIMSeq
stageR
updated 5.2 years ago by
Koen Van den Berge
▴ 180 • written 5.2 years ago by
sdvie
• 0
1
vote
2
replies
1.4k
views
Normalized transcript/exon counts for network analysis
drimseq
dexseq
wgcna
sva
updated 5.3 years ago by
Gosia Nowicka
▴ 90 • written 5.3 years ago by
maya.kappil
▴ 30
0
votes
4
replies
1.5k
views
DRIMSeq continious variable in design matrix - Error during precision estimation
DRIMSeq
dmPrecision
updated 15 months ago by
Mary-Ellen
• 0 • written 5.3 years ago by
fiona.dick91
▴ 60
2
votes
4
replies
1.7k
views
stageR: Error in stageWiseAdjustment
stageR
rnaseqDTU
DRIMSeq
DEXSeq
5.3 years ago
d-joester
▴ 20
2
votes
2
replies
1.2k
views
rnaseqDTU DTU workflow - pots-hoc Filter
DTU
DRIMSeq
rnaseqDTU
updated 5.4 years ago by
Michael Love
42k • written 5.4 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 5.5 years ago by
Michael Love
42k • written 5.5 years ago by
Jack.Hearn
• 0
1
vote
1
reply
785
views
Calling a package specific function in a for loop
drimseq
swimming downstream
for loop
sapply
updated 5.5 years ago by
Martin Morgan
25k • written 5.5 years ago by
georgewwp
• 0
4
votes
3
replies
1.5k
views
DEXSeq and DRIMSeq on paired samples?
DRIMSeq
DEXSeq
updated 5.7 years ago by
Gosia Nowicka
▴ 90 • written 5.7 years ago by
zoe.ward
• 0
2
votes
9
replies
1.8k
views
stageR NA in getAdjustedPValues() (method=dtu)
drimseq
stageR
dtu
salmon rna seq
updated 5.9 years ago by
Koen Van den Berge
▴ 180 • written 5.9 years ago by
fiona.dick91
▴ 60
1
vote
1
reply
1.3k
views
DrimSeq: installation versions
drimseq
DTU
updated 6.8 years ago by
Martin Morgan
25k • written 6.8 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 7.3 years ago by
Gosia Nowicka
▴ 90 • written 7.3 years ago by
kristoffer.vittingseerup
▴ 20
26 results • Page
1 of 1
Recent ...
Replies
Comment: How to compare subset of samples from VCF files
by
Gordon Smyth
50k
Welcome to Bioconductor support. Did you know that you can delete your old postings if they haven't received an answer yet? Instead of ap…
Comment: How to compare subset of samples from VCF files
by
Marco
• 0
Here's the vcf file as code block ``` ##fileformat=VCFv4.2 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth"> ##FOR…
Comment: Gviz and custom database
by
James W. MacDonald
66k
The vignette for `Gviz` says you can use a `DNAStringSet`, generated using `Biostrings`. Have you tried that?
Comment: Gviz and custom database
by
luigi.faino
• 0
Dear, this is not what I need. I need to transform a fasta sequence in a genome track usable in Gviz. L
Answer: Gviz and custom database
by
James W. MacDonald
66k
https://bioconductor.org/packages/release/bioc/vignettes/txdbmaker/inst/doc/txdbmaker.html
Votes
Answer: makeExampleDESeqDataSet using pilot data
Answer: Checking/updating package versions
Answer: Why is longestConsecutive() depreceated in version 2.72 (BioC version 3.19)?
convert data frame of Entrez IDs to Gene Symbols
Answer: LRT, pairwise comparisons and p-value adjustment
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