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PCAtools
•
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0
votes
0
replies
181
views
Problem with PCAtool as dependencie
COTAN
PCAtools
7 months ago
Silvia
• 0
1
vote
2
replies
1.0k
views
How can I create a eigencorplot of pca created from deseq2 object with PCAtools
DESeq2
eigencorplot
PCAtools
15 months ago
BioinfGuru
▴ 70
0
votes
2
replies
674
views
PCA plot suggestions
DESeq2
PCAtools
updated 16 months ago by
Michael Love
43k • written 16 months ago by
Aaliya
• 0
0
votes
7
replies
2.5k
views
DESeq2 output used for PCA plot on R studio
DESeq2
RSTUDIO
PCAtools
updated 16 months ago by
swbarnes2
★ 1.4k • written 16 months ago by
Aaliya
• 0
3
votes
6
replies
2.1k
views
Differing results from plotMDS and PCAtools
edgeR
PCAtools
written 17 months ago by
Fabian
• 0
4
votes
8
replies
6.0k
views
Interpreting ellipses in PCAtools for bulk RNAseq
ellipse
RNAseq
PCAtools
updated 2.4 years ago by
CP
• 0 • written 4.3 years ago by
elizabethe819
• 0
1
vote
3
replies
1.9k
views
Adding ellipse in PCAtools biplot
Biplot
FactoMineR
proteomics
PCAtools
ellipse
updated 2.6 years ago by
Kevin Blighe
★ 4.0k • written 2.6 years ago by
M Tuhin
• 0
1
vote
1
reply
1.9k
views
PCA input data from DRAGEN RNA pipeline
illumina
PCAtools
PCA
updated 2.8 years ago by
Kevin Blighe
★ 4.0k • written 2.8 years ago by
ilaria.debenedictis
• 0
0
votes
1
reply
1.2k
views
Attempt to install bioconductor 3.15, PCAtools
PCAtools
bioconductor
updated 3.1 years ago by
James W. MacDonald
68k • written 3.1 years ago by
pterry
• 0
0
votes
3
replies
2.3k
views
I got error when visualizing my PCA
PCAtools
pcaExplorer
pcaMethods
updated 3.2 years ago by
Federico Marini
▴ 180 • written 3.2 years ago by
m610110001
• 0
5
votes
6
replies
4.1k
views
Large difference in PCA plot based on LCPM (log counts per million) and VST (variance stabilizing transformations)
PCAtools
edgeR
pcaExplorer
RNASeq
RNAseq123
3.4 years ago
Alan
• 0
3
votes
2
replies
1.3k
views
PCAtools lables missing or out of the plot
PCAtools
4.4 years ago
luca.s
▴ 50
3
votes
3
replies
3.9k
views
PCAtools - change colour of points
PCAtools
updated 4.6 years ago by
Kevin Blighe
★ 4.0k • written 4.6 years ago by
Terra
• 0
3
votes
15
replies
4.4k
views
How to ellipse a subset of data PCA biplot?
biplot
PCA
RNASeq
PCAtools
updated 4.7 years ago by
Kevin Blighe
★ 4.0k • written 4.7 years ago by
mschmidt
▴ 10
0
votes
1
reply
2.4k
views
Perform a biplot from pcaData and coldata in DESeq2, maybe PCAtools?
PCAtools
biplot
DESeq2
RNASeq
PCA
updated 4.8 years ago by
Kevin Blighe
★ 4.0k • written 4.8 years ago by
ecg1g15
▴ 30
1
vote
3
replies
2.1k
views
PCATools: is it possible to output a single legend when using pairsplot()?
PCATools
updated 4.9 years ago by
Kevin Blighe
★ 4.0k • written 4.9 years ago by
oakhamwolf
• 0
2
votes
4
replies
2.4k
views
Comparing discrete variable to PCA
EDA
pcaExplorer
PCAtools
PCA
updated 3.7 years ago by
Miguel
▴ 20 • written 5.0 years ago by
k.vitting.seerup
▴ 120
17 results • Page
1 of 1
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Replies
Answer: ROAST compare results with complex design
by
James W. MacDonald
68k
You are specifying that the last column of your design should be used as the contrast. You should instead use `contrast[,1]`, which will us…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
by
James W. MacDonald
68k
Yes. You can infer that by figuring out what each coefficient measures. Here is your design matrix: ``` > targets ID Name phase G…
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
by
snijesh
▴ 200
I would like to clarify whether the command `res <- results(dds, name = "phaseLP.conditionTreated")` is the correct approach to generate …
Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
by
James W. MacDonald
68k
Not sure I understand. You ask how to do something and then show how one would do so.
Comment: DiffBind getting Fold values of near 0
by
littlefishes20
▴ 10
Same issues. All peaks return to a fold near 0, although they are significant when visualizing in IGV. Please find the MAplot and volcanoPl…
Votes
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
Can NanoString data be analyzed using DESeq2?
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