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plotPCA
•
reset
0
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2
replies
929
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Help Subsetting DDS for plotPCA for contrast groups
Rstudio
plotPCA
DESeq2
15 months ago • updated 14 months ago
yee
• 0
1
vote
5
replies
1.1k
views
Mixed up sample info with plotPCA
plotMA
ggplot2
plotPCA
DESeq2
updated 16 months ago by
Michael Love
43k • written 16 months ago by
sara.jacobson
• 0
0
votes
3
replies
5.4k
views
How to change the dot size in plotPCA?
plotPCA
PCA
updated 22 months ago by
hediatnani
• 0 • written 23 months ago by
Yijing
• 0
3
votes
5
replies
3.2k
views
Plot PC1 and PC4 in plotPCA function
DESeq2
plotPCA
updated 8 months ago by
Daniele
• 0 • written 3.1 years ago by
synat.keam
• 0
3
votes
3
replies
9.2k
views
Adding sample label to PCA plot
plotpca
DESeq2
3.1 years ago
bjen731
▴ 10
2
votes
2
replies
1.8k
views
How to retain metadata after running RemoveBatchEffect() after RUVSeq to format PCA plot?
plotPCA
DESeq2
RUVSeq
removebatcheffect()
3.8 years ago
elizabethe819
• 0
1
vote
1
reply
1.1k
views
No result from plotPCA()
DESeq2
RNASeq
plotpca
updated 4.1 years ago by
Michael Love
43k • written 4.1 years ago by
s1760083
• 0
0
votes
3
replies
1.4k
views
Biplot environmental variables on top of PCA
deseq2
biplot
plotpca
updated 5.1 years ago by
Michael Love
43k • written 5.1 years ago by
ecg1g15
▴ 30
0
votes
1
reply
817
views
Comparisons between populations
deseq2
PlotPCA
draw.triple.venn
updated 6.5 years ago by
Michael Love
43k • written 6.5 years ago by
N. Perera
• 0
0
votes
1
reply
818
views
PCA analysis of 2/3 samples out of a 8 sample countmatrix
deseq2
plotpca
updated 6.5 years ago by
Michael Love
43k • written 6.5 years ago by
snp31
• 0
12
votes
1
reply
8.0k
views
identifying the samples on plotPCA
deseq2
plotpca
PCa
updated 7.3 years ago by
Michael Love
43k • written 7.3 years ago by
lirongrossmann
▴ 80
0
votes
6
replies
3.8k
views
Different PCA plots using rlog and vsd on the same data set
deseq2
rlog
variancestabilizingtransformation
plotpca
pca
7.4 years ago
lirongrossmann
▴ 80
2
votes
4
replies
3.5k
views
DESeq2 - PCAplot differs between rlog and vsd transformation
DESeq2
plotPCA
rlog transformation
vsd
7.6 years ago
Jane Merlevede
▴ 90
14
votes
5
replies
47k
views
plotPCA - how to add labels to a PCA plot
plotPCA
deseq2
labels
updated 8.1 years ago by
Federico Marini
▴ 180 • written 8.1 years ago by
al-ash
▴ 50
0
votes
0
replies
1.1k
views
group vectors around pca origins into 5 degrees arc cluster
pca
plotpca
8.4 years ago
marianarochadesouza
• 0
0
votes
3
replies
1.8k
views
Trouble with Custom PC Plot
deseq2
plotPCA
PCA
rna-seq
8.8 years ago
newsomew13
• 0
16 results • Page
1 of 1
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Comment: Differential variance analysis - can i use deseq2
by
Michael Love
43k
VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…
Answer: Use of limma R package with targeted proteomics for DE analysis
by
Gordon Smyth
52k
It is usual to analyse log normalized values from Olink in limma. Just a straight log transformation should be sufficient. We find that `tr…
Comment: WGCNA
by
pammelala304
• 0
Thank you for your time and effort. I am so grateful! Play game [block blast](https://blockblastpuzzle.io) free.
Comment: Does anyone have the command to download all of the core_nt using blast_db_get()
by
Matthew Thornton
▴ 380
Ok. So I guess the core_nt is over 300Gb compressed. I can do it, but maybe it is better to just use ncbi-tools over the internet and just…
Comment: normalizatino of dna methylation EPIC data
by
user_bioinfo
• 0
yes actually that's why I did, and its all good! thank you for your response
Votes
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: normalizatino of dna methylation EPIC data
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
Suggesting changing the "reply-to" field to the mailing list address.
Answer: UniProt.ws query for single UniRef90 ID takes several minutes
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