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PCAtools
•
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5
votes
6
replies
2.3k
views
Large difference in PCA plot based on LCPM (log counts per million) and VST (variance stabilizing transformations)
PCAtools
edgeR
pcaExplorer
RNASeq
RNAseq123
23 months ago
Alan
• 0
4
votes
8
replies
3.4k
views
Interpreting ellipses in PCAtools for bulk RNAseq
ellipse
RNAseq
PCAtools
updated 11 months ago by
Paola
• 0 • written 2.8 years ago by
elizabethe819
• 0
3
votes
2
replies
782
views
PCAtools lables missing or out of the plot
PCAtools
3.0 years ago
luca.s
▴ 50
3
votes
15
replies
3.1k
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
2.5k
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
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 3.6 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 14 months ago by
Kevin Blighe
★ 3.9k • written 14 months ago by
M Tuhin
• 0
1
vote
1
reply
905
views
PCA input data from DRAGEN RNA pipeline
illumina
PCAtools
PCA
updated 16 months ago by
Kevin Blighe
★ 3.9k • written 16 months ago by
ilaria.debenedictis
• 0
1
vote
3
replies
1.3k
views
PCATools: is it possible to output a single legend when using pairsplot()?
PCATools
updated 3.4 years ago by
Kevin Blighe
★ 3.9k • written 3.4 years ago by
oakhamwolf
• 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 3.3 years ago by
Kevin Blighe
★ 3.9k • written 3.3 years ago by
ecg1g15
▴ 20
0
votes
1
reply
806
views
Attempt to install bioconductor 3.15, PCAtools
PCAtools
bioconductor
updated 20 months ago by
James W. MacDonald
65k • written 20 months ago by
pterry
• 0
0
votes
3
replies
1.1k
views
I got error when visualizing my PCA
PCAtools
pcaExplorer
pcaMethods
updated 21 months ago by
Federico Marini
▴ 150 • written 21 months ago by
m610110001
• 0
12 results • Page
1 of 1
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Replies
Comment: error when using M-values in ChAMP
by
hortenseguillaume96
• 0
Hello Tian, I'd like to get the M-values matrix so that I can carry out a linear regression study. However, when I apply the champ.load fu…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Votes
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
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