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rna
•
reset
3
votes
6
replies
328
views
Limma: log2 of TMM values for RNA-Seq Analysis and PlotMDS()?
Log2
edgeR
RNA
limma
Normalization
10 weeks ago • updated 9 weeks ago
Sara
• 0
0
votes
0
replies
94
views
Correct GFF3 translation for FeatureCounts
RNASeq
FeatureCounts
Rna
3 months ago
rridley3
• 0
0
votes
1
reply
167
views
Confused about design for RNA seq experiment
RNAseq
ExperimentData
RNAseq123
RNA
ExperimentalDesign
updated 4 months ago by
ATpoint
★ 2.0k • written 4 months ago by
Mohamed
• 0
0
votes
0
replies
241
views
Job:
Scientist/Senior Scientist – Bioinformatics / Computational Biology
MassSpectrometryData
RNA
DifferentialExpression
5 months ago
António Miguel de Jesus Domingues
▴ 490
0
votes
2
replies
284
views
Rsubread align --R session aborts
RNA
Alignment
Rsubread
5 months ago
sreekalasn
• 0
2
votes
1
reply
296
views
Error in RNAseq123 analysis, unexpected symbol.
RNAseq123
Rna
updated 7 months ago by
Gordon Smyth
47k • written 7 months ago by
Mikołaj Mierzejewski
• 0
1
vote
2
replies
468
views
Is it necessary to standardize Combat in R?
RNA
Combat
sva
R
8 months ago
takemoto
• 0
1
vote
1
reply
308
views
Description of the headers obtained from the Eligos2 output
methylation
RNA
native
epitranscriptomics
updated 10 months ago by
tcalvo
▴ 80 • written 10 months ago by
megha.hs28
▴ 10
0
votes
1
reply
374
views
Ensembl dataset version
tximport
rna
rnaseqGene
biomaRt
updated 12 months ago by
ATpoint
★ 2.0k • written 12 months ago by
st3472
• 0
0
votes
0
replies
305
views
Cross-cultivar RNA-seq analysis
RNA
Normalization
21 months ago
nancy
• 0
0
votes
4
replies
680
views
Fitting a continuous variable with batch effect using Limma. Also a question about normalization.
limma
edgeR
rna
21 months ago
Nirad
• 0
0
votes
3
replies
1.1k
views
Pearson correlation between gene expression and phenotype
edgeR
RNASeq
updated 2.2 years ago by
Gordon Smyth
47k • written 2.2 years ago by
weichengz
• 0
4
votes
3
replies
933
views
How to resolve NAs when annotating a diff gene list with org.Hs.eg.db terms?
annotation
rna
updated 2.3 years ago by
James W. MacDonald
62k • written 2.3 years ago by
anthony.nash
▴ 20
2
votes
7
replies
641
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy
rna
hta2.0
r
updated 2.7 years ago by
James W. MacDonald
62k • written 2.7 years ago by
Marco_aurelio
• 0
1
vote
1
reply
378
views
How to interpret coefficients of time course modeled data with DESeq2?
deseq2
RNA
updated 2.7 years ago by
Michael Love
39k • written 2.7 years ago by
agsousa
• 0
0
votes
6
replies
568
views
Bizarre Dispersion Plots
deseq2
RNA
RNASeq
updated 2.9 years ago by
Michael Love
39k • written 2.9 years ago by
stephen.hartley
• 0
0
votes
0
replies
505
views
Job:
Post-doctoral Fellowship at BC Cancer Research Center, Vancouver BC
single cell
RNA
Data analysis
Bioinformatics
Job
3.6 years ago
jmaanaki
• 0
1
vote
1
reply
723
views
how to filter genes in significant module?
RNA
WGCNA
filter
3.6 years ago
modarzi
▴ 10
0
votes
2
replies
547
views
DESeq and checkFullRank(modelMatrix)
RNA
DESeq2
updated 3.8 years ago by
Michael Love
39k • written 3.8 years ago by
Merlin
▴ 10
2
votes
1
reply
454
views
DESeq2 statistic and design
deseq2
RNA
updated 3.8 years ago by
Michael Love
39k • written 3.8 years ago by
Merlin
▴ 10
5
votes
5
replies
818
views
Association analysis between gene expression and Phenotype
rna
singlecell
limma
updated 3.8 years ago by
Aaron Lun
★ 28k • written 3.8 years ago by
hrishi27n
▴ 20
2
votes
3
replies
699
views
Number and percent of mapped reads from RNA seq analysis.
rna-seq
rna
updated 3.8 years ago by
Steve Lianoglou
13k • written 3.8 years ago by
Anthony Nash
▴ 20
1
vote
0
replies
592
views
Job:
1 Computational Biologist and 1 Molecular Biologist
computational biology
molecular biology
RNA
r-loop
ncRNA
Job
4.3 years ago
l.brown
▴ 10
0
votes
0
replies
574
views
R code for finding wobble/redundant positions in an RNA string
r
code
rna
wobble
5.0 years ago
fawazfebin
▴ 50
0
votes
1
reply
652
views
Time series comparison with DESEQ2
RNA
rnaseq
deseq2
updated 5.4 years ago by
Michael Love
39k • written 5.4 years ago by
hrishi27n
▴ 20
0
votes
1
reply
1.1k
views
RNA sequencing analysis for time point experiment using DeSeq2
deseq2
RNA
rnaseq
updated 5.5 years ago by
Michael Love
39k • written 5.5 years ago by
hrishi27n
▴ 20
1
vote
1
reply
847
views
Outliers - to remove or to not remove that is the question
outliers
rna
microarray
updated 5.7 years ago by
chris86
▴ 400 • written 5.7 years ago by
bhgyu
▴ 30
5
votes
4
replies
924
views
Experiment design contrasts any time edgeR
DGE
rnaseq
RNA
edger
updated 5.7 years ago by
londonflavido
• 0 • written 5.7 years ago by
Pietro
▴ 40
3
votes
6
replies
1.4k
views
Regressing effect of treatment on RNA-seq expected count from rsem.
RNA
rna-seq
science
bioinformatics
updated 5.8 years ago by
James W. MacDonald
62k • written 5.8 years ago by
hrishi27n
▴ 20
6
votes
5
replies
2.8k
views
Clustering differential expression results from voomWithQualityWeights
RNA
limma
rsem
edgeR
updated 5.8 years ago by
Gordon Smyth
47k • written 5.8 years ago by
hrishi27n
▴ 20
0
votes
0
replies
1.0k
views
Finding candidate binding sites for RNA binding proteins in R
R
bioconductor
RNA
mRNA
RNA binding proteins
5.9 years ago
Walter F. Baumann
▴ 10
3
votes
1
reply
1.3k
views
Targeted RNASeq/CaptureSeq DE Analysis
EdgeR
deseq2
RNA
differential expression
updated 6.4 years ago by
Aaron Lun
★ 28k • written 6.4 years ago by
tyssowski
• 0
0
votes
4
replies
4.4k
views
RNAseq Adjusting for Covariates?
RNA
rnaseq
Covariate
adjustment
deseq
updated 6.9 years ago by
Michael Love
39k • written 6.9 years ago by
sjs0282
• 0
0
votes
2
replies
968
views
Normalizzation indipentent data from RNAAeq experiment
rna
normalization
8.3 years ago
aristotele_m
▴ 30
34 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.
Awards
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Teacher
to
Michael Love
39k
Teacher
to
James W. MacDonald
62k
Popular Question
to
Assa Yeroslaviz
★ 1.5k
Scholar
to
ATpoint
★ 2.0k
Popular Question
to
adR
▴ 20
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