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pcatools
•
reset
5
votes
6
replies
2.4k
views
Large difference in PCA plot based on LCPM (log counts per million) and VST (variance stabilizing transformations)
PCAtools
edgeR
pcaExplorer
RNASeq
RNAseq123
2.0 years ago
Alan
• 0
4
votes
8
replies
3.5k
views
Interpreting ellipses in PCAtools for bulk RNAseq
ellipse
RNAseq
PCAtools
updated 12 months ago by
Paola
• 0 • written 2.9 years ago by
elizabethe819
• 0
3
votes
5
replies
325
views
Differing results from plotMDS and PCAtools
edgeR
PCAtools
updated 19 days ago by
Gordon Smyth
50k • written 21 days ago by
Fabian
• 0
3
votes
15
replies
3.2k
views
How to ellipse a subset of data PCA biplot?
biplot
PCA
RNASeq
PCAtools
updated 3.3 years ago by
Kevin Blighe
★ 3.9k • written 3.3 years ago by
mschmidt
▴ 10
3
votes
3
replies
2.6k
views
PCAtools - change colour of points
PCAtools
updated 3.2 years ago by
Kevin Blighe
★ 3.9k • written 3.2 years ago by
Terra
• 0
3
votes
2
replies
818
views
PCAtools lables missing or out of the plot
PCAtools
3.1 years ago
luca.s
▴ 50
2
votes
4
replies
1.5k
views
Comparing discrete variable to PCA
EDA
pcaExplorer
PCAtools
PCA
updated 2.3 years ago by
Miguel
▴ 10 • written 3.7 years ago by
k.vitting.seerup
▴ 120
1
vote
3
replies
1.1k
views
Adding ellipse in PCAtools biplot
Biplot
FactoMineR
proteomics
PCAtools
ellipse
updated 15 months ago by
Kevin Blighe
★ 3.9k • written 15 months ago by
M Tuhin
• 0
1
vote
1
reply
931
views
PCA input data from DRAGEN RNA pipeline
illumina
PCAtools
PCA
updated 17 months ago by
Kevin Blighe
★ 3.9k • written 17 months ago by
ilaria.debenedictis
• 0
1
vote
3
replies
1.4k
views
PCATools: is it possible to output a single legend when using pairsplot()?
PCATools
updated 3.5 years ago by
Kevin Blighe
★ 3.9k • written 3.5 years ago by
oakhamwolf
• 0
0
votes
1
reply
837
views
Attempt to install bioconductor 3.15, PCAtools
PCAtools
bioconductor
updated 21 months ago by
James W. MacDonald
65k • written 21 months ago by
pterry
• 0
0
votes
3
replies
1.1k
views
I got error when visualizing my PCA
PCAtools
pcaExplorer
pcaMethods
updated 22 months ago by
Federico Marini
▴ 150 • written 22 months ago by
m610110001
• 0
0
votes
1
reply
1.7k
views
Perform a biplot from pcaData and coldata in DESeq2, maybe PCAtools?
PCAtools
biplot
DESeq2
RNASeq
PCA
updated 3.4 years ago by
Kevin Blighe
★ 3.9k • written 3.4 years ago by
ecg1g15
▴ 20
13 results • Page
1 of 1
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Replies
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…
Votes
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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