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pcatools
•
reset
5
votes
6
replies
2.5k
views
Large difference in PCA plot based on LCPM (log counts per million) and VST (variance stabilizing transformations)
PCAtools
edgeR
pcaExplorer
RNASeq
RNAseq123
2.1 years ago
Alan
• 0
4
votes
8
replies
3.6k
views
Interpreting ellipses in PCAtools for bulk RNAseq
ellipse
RNAseq
PCAtools
updated 13 months ago by
CP
• 0 • written 3.0 years ago by
elizabethe819
• 0
3
votes
5
replies
388
views
Differing results from plotMDS and PCAtools
edgeR
PCAtools
updated 5 weeks ago by
Gordon Smyth
50k • written 5 weeks 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 3.4 years ago by
Kevin Blighe
★ 3.9k • written 3.4 years ago by
mschmidt
▴ 10
3
votes
3
replies
2.6k
views
PCAtools - change colour of points
PCAtools
updated 3.3 years ago by
Kevin Blighe
★ 3.9k • written 3.3 years ago by
Terra
• 0
3
votes
2
replies
839
views
PCAtools lables missing or out of the plot
PCAtools
3.1 years ago
luca.s
▴ 50
2
votes
4
replies
1.6k
views
Comparing discrete variable to PCA
EDA
pcaExplorer
PCAtools
PCA
updated 2.4 years ago by
Miguel
▴ 10 • written 3.7 years ago by
k.vitting.seerup
▴ 120
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
1
vote
1
reply
956
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
1.2k
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
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
0
votes
8
replies
349
views
DESeq2 output used for PCA plot on R studio
DESeq2
RSTUDIO
PCAtools
updated 11 days ago by
swbarnes2
★ 1.3k • written 13 days ago by
Aaliya
• 0
0
votes
2
replies
210
views
PCA plot suggestions
DESeq2
PCAtools
updated 10 days ago by
Michael Love
41k • written 11 days ago by
Aaliya
• 0
0
votes
1
reply
863
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
1.2k
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
15 results • Page
1 of 1
Recent ...
Replies
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Hervé Pagès
16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
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Michael Love
41k
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Malcolm Cook
★ 1.6k
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Gordon Smyth
50k
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priyanka.m
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Vincent J. Carey, Jr.
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