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plotpca
•
reset
0
votes
2
replies
1.2k
views
Help Subsetting DDS for plotPCA for contrast groups
Rstudio
plotPCA
DESeq2
23 months ago • updated 22 months ago
yee
• 0
1
vote
5
replies
1.5k
views
Mixed up sample info with plotPCA
plotMA
ggplot2
plotPCA
DESeq2
updated 2.0 years ago by
Michael Love
43k • written 2.0 years ago by
sara.jacobson
• 0
0
votes
3
replies
6.1k
views
How to change the dot size in plotPCA?
plotPCA
PCA
updated 2.5 years ago by
hediatnani
• 0 • written 2.6 years ago by
Yijing
• 0
3
votes
5
replies
3.5k
views
Plot PC1 and PC4 in plotPCA function
DESeq2
plotPCA
updated 16 months ago by
Daniele
• 0 • written 3.7 years ago by
synat.keam
• 0
3
votes
3
replies
10k
views
Adding sample label to PCA plot
plotpca
DESeq2
3.8 years ago
bjen731
▴ 10
2
votes
2
replies
2.1k
views
How to retain metadata after running RemoveBatchEffect() after RUVSeq to format PCA plot?
plotPCA
DESeq2
RUVSeq
removebatcheffect()
4.4 years ago
elizabethe819
• 0
1
vote
1
reply
1.3k
views
No result from plotPCA()
DESeq2
RNASeq
plotpca
updated 4.7 years ago by
Michael Love
43k • written 4.7 years ago by
s1760083
• 0
0
votes
3
replies
1.6k
views
Biplot environmental variables on top of PCA
deseq2
biplot
plotpca
updated 5.7 years ago by
Michael Love
43k • written 5.7 years ago by
ecg1g15
▴ 30
0
votes
1
reply
905
views
Comparisons between populations
deseq2
PlotPCA
draw.triple.venn
updated 7.1 years ago by
Michael Love
43k • written 7.1 years ago by
N. Perera
• 0
0
votes
1
reply
950
views
PCA analysis of 2/3 samples out of a 8 sample countmatrix
deseq2
plotpca
updated 7.1 years ago by
Michael Love
43k • written 7.1 years ago by
snp31
• 0
12
votes
1
reply
8.4k
views
identifying the samples on plotPCA
deseq2
plotpca
PCa
updated 8.0 years ago by
Michael Love
43k • written 8.0 years ago by
lirongrossmann
▴ 80
0
votes
6
replies
4.1k
views
Different PCA plots using rlog and vsd on the same data set
deseq2
rlog
variancestabilizingtransformation
plotpca
pca
8.1 years ago • updated 8.0 years ago
lirongrossmann
▴ 80
2
votes
4
replies
3.8k
views
DESeq2 - PCAplot differs between rlog and vsd transformation
DESeq2
plotPCA
rlog transformation
vsd
8.2 years ago
Jane Merlevede
▴ 90
14
votes
5
replies
49k
views
plotPCA - how to add labels to a PCA plot
plotPCA
deseq2
labels
updated 8.8 years ago by
Federico Marini
▴ 180 • written 8.8 years ago by
al-ash
▴ 50
0
votes
0
replies
1.2k
views
group vectors around pca origins into 5 degrees arc cluster
pca
plotpca
9.0 years ago
marianarochadesouza
• 0
0
votes
3
replies
2.0k
views
Trouble with Custom PC Plot
deseq2
plotPCA
PCA
rna-seq
9.4 years ago
newsomew13
• 0
16 results • Page
1 of 1
Recent ...
Replies
Comment: Help with defining groups
by
Phinney, Brett
▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness
by
massimo
• 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package
by
ksankaran
• 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
by
ATpoint
★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes
by
ATpoint
★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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