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rnaseq_analysis
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RNASeq data analysis with bio replicates
rnaseq_analysis
6.9 years ago
fakhter1
• 0
3
votes
3
replies
4.3k
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How to do a confounding variable adjustment without using the treatment information?
deseq2
rnaseq_analysis
variancestabilizingtransformation
confounders
updated 7.9 years ago by
Michael Love
41k • written 7.9 years ago by
ompandey
▴ 10
1
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1
reply
1.0k
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How to simulate count data to test rnaseq analysis code?
rnaseq_analysis
updated 7.6 years ago by
Gordon Smyth
50k • written 7.6 years ago by
kjo
▴ 70
1
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2
replies
1.7k
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Limma model fitting: including and excluding replicates in the model gives different results in RNAseq Analysis
limma
RNAseq_Analysis
model.matrix
updated 8.9 years ago by
Aaron Lun
★ 28k • written 8.9 years ago by
anver
• 0
1
vote
7
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1.9k
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limma - Multi-level Experiments - time course data
limma
limma voom
rnaseq_analysis
DEG
6.1 years ago • updated 5.1 years ago
SPbeginner
• 0
1
vote
3
replies
1.3k
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Ortholog conversions of non-model organisms not present in Biomart, ensembl or KEGG
rnaseq_analysis
KEGG
nonmodel species
updated 5.6 years ago by
James W. MacDonald
65k • written 5.6 years ago by
laural710
• 0
0
votes
0
replies
908
views
Sequence composition effect
sequencing
rnaseq_analysis
6.2 years ago
alemutak
• 0
7 results • Page
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Comment: DESeq filtering specific to contrasts
by
Michael Love
41k
It will likely not filter it out, but really the per-dataset details would affect the results.
Comment: DESeq filtering specific to contrasts
by
Carlin95
• 0
Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…
Comment: FilterByExpr low counts with small sample size
by
Jonathan
▴ 10
Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Seyram M.
• 0
Thank you very much for your reply! I will do so. Kind regards, Seyram
Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
by
isaac.vock
• 0
Thank you for your response. I can confirm that setting `-t exon` and/or removing `-s 1` and adding `-O` has no impact on the number of suc…
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Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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