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PCAtools
•
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0
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0
replies
257
views
Problem with PCAtool as dependencie
COTAN
PCAtools
11 months ago
Silvia
• 0
1
vote
2
replies
1.2k
views
How can I create a eigencorplot of pca created from deseq2 object with PCAtools
DESeq2
eigencorplot
PCAtools
19 months ago
BioinfGuru
▴ 70
0
votes
2
replies
763
views
PCA plot suggestions
DESeq2
PCAtools
updated 20 months ago by
Michael Love
43k • written 20 months ago by
Aaliya
• 0
0
votes
7
replies
2.8k
views
DESeq2 output used for PCA plot on R studio
DESeq2
RSTUDIO
PCAtools
updated 20 months ago by
swbarnes2
★ 1.4k • written 20 months ago by
Aaliya
• 0
3
votes
6
replies
2.3k
views
Differing results from plotMDS and PCAtools
edgeR
PCAtools
written 21 months ago by
Fabian
• 0
4
votes
8
replies
6.2k
views
Interpreting ellipses in PCAtools for bulk RNAseq
ellipse
RNAseq
PCAtools
updated 2.7 years ago by
CP
• 0 • written 4.6 years ago by
elizabethe819
• 0
1
vote
3
replies
2.1k
views
Adding ellipse in PCAtools biplot
Biplot
FactoMineR
proteomics
PCAtools
ellipse
updated 2.9 years ago by
Kevin Blighe
★ 4.0k • written 2.9 years ago by
M Tuhin
• 0
1
vote
1
reply
2.0k
views
PCA input data from DRAGEN RNA pipeline
illumina
PCAtools
PCA
updated 3.1 years ago by
Kevin Blighe
★ 4.0k • written 3.1 years ago by
ilaria.debenedictis
• 0
0
votes
1
reply
1.3k
views
Attempt to install bioconductor 3.15, PCAtools
PCAtools
bioconductor
updated 3.4 years ago by
James W. MacDonald
68k • written 3.4 years ago by
pterry
• 0
0
votes
3
replies
2.4k
views
I got error when visualizing my PCA
PCAtools
pcaExplorer
pcaMethods
updated 3.5 years ago by
Federico Marini
▴ 180 • written 3.5 years ago by
m610110001
• 0
5
votes
6
replies
4.3k
views
Large difference in PCA plot based on LCPM (log counts per million) and VST (variance stabilizing transformations)
PCAtools
edgeR
pcaExplorer
RNASeq
RNAseq123
3.7 years ago
Alan
• 0
3
votes
2
replies
1.4k
views
PCAtools lables missing or out of the plot
PCAtools
4.7 years ago
luca.s
▴ 50
3
votes
3
replies
4.0k
views
PCAtools - change colour of points
PCAtools
updated 4.9 years ago by
Kevin Blighe
★ 4.0k • written 4.9 years ago by
Terra
• 0
3
votes
15
replies
4.6k
views
How to ellipse a subset of data PCA biplot?
biplot
PCA
RNASeq
PCAtools
updated 5.0 years ago by
Kevin Blighe
★ 4.0k • written 5.0 years ago by
mschmidt
▴ 10
0
votes
1
reply
2.6k
views
Perform a biplot from pcaData and coldata in DESeq2, maybe PCAtools?
PCAtools
biplot
DESeq2
RNASeq
PCA
updated 5.1 years ago by
Kevin Blighe
★ 4.0k • written 5.1 years ago by
ecg1g15
▴ 30
1
vote
3
replies
2.2k
views
PCATools: is it possible to output a single legend when using pairsplot()?
PCATools
updated 5.2 years ago by
Kevin Blighe
★ 4.0k • written 5.2 years ago by
oakhamwolf
• 0
2
votes
4
replies
2.5k
views
Comparing discrete variable to PCA
EDA
pcaExplorer
PCAtools
PCA
updated 4.0 years ago by
Miguel
▴ 20 • written 5.3 years ago by
k.vitting.seerup
▴ 120
17 results • Page
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Answer: segfault in edgeR glmQLFit
by
Gordon Smyth
53k
Dear Mark, Thank you for providing a reproducible example. I confirm that I can reproduce the segfault myself on my own computer. We will …
Answer: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink
by
aqeel
• 0
Discover the pinnacle of Brazilian Jiu Jitsu gear at [Dragon][1] GI. [1]: https://dragongi.com/
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in
by
Gordon Smyth
53k
I refered you to the DiffVar package 11 months ago. Did you consider it? Your clarification makes it clear that your issue is not with lim…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in
by
jtsy6383
• 0
Thanks for the reply Gordon. I am also working on the project and have been tasked to reformulate and add some details. We're interested i…
Answer: How does contrasts.fit do in limma to extract comparisons with a model having in
by
Gordon Smyth
53k
The limma Users Guide explains how to test for interactions or to test for contrasts very easily. limma can work with any design matrix, bu…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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