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8
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2
answers
642
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7 follow
2
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Forum: Feature Selection in 10X scRNA-seq data
scrna-seq forum pca software-error written 8 months ago by ATpoint ♦ 39k
1
vote
2
answers
204
views
7 follow
2
answers
Differences between PCA plots in DESeq and FactoMineR
R pca deseq factominer written 11 days ago by caitlin.mcandry • 0
1
vote
2
answers
6.3k
views
2
answers
Principle Component Analysis (PCA) for GWAS (SNP genotype data)
R pca snp gwas written 5.8 years ago by samorjoy • 10 • updated 12 days ago by ricardoguerreiro2121 • 60
2
votes
1
answer
140
views
1
answer
Principle component analysis PCA
pca principalcomponentanalysis written 16 days ago by phamh • 0 • updated 15 days ago by Biostar ♦♦ 20
10
votes
1
answer
2.2k
views
6 follow
1
answer
PCA: summarize results from principal components analysis and look for population heterogeneity
principal components analysis pca plink written 2.2 years ago by F_cm_C • 20 • updated 16 days ago by karenunr100 • 0
3
votes
1
answer
232
views
1
answer
PCA and loadings: how to discriminate betwen real and background/noise signal?
R pcatools loadings pca rna-seq written 4 weeks ago by camillab. • 30
0
votes
1
answer
120
views
1
answer
Detecting Outliers by looking at PCA
R outlier pca rna-seq written 27 days ago by leekun4 • 0 • updated 27 days ago by swbarnes2 ♦ 8.6k
2
votes
0
answers
217
views
0
answers
PCA and loadings question
scale bulkrna loadings pca written 11 weeks ago by camillab. • 30 • updated 28 days ago by Biostar ♦♦ 20
23
votes
0
answers
1.4k
views
14 follow
0
answers
Tool: PCAtools: everything Principal Components Analysis
R bioconductor pca eigenvector tool written 19 months ago by Kevin Blighe ♦ 65k
0
votes
0
answers
114
views
0
answers
pcaExplorer greyed out should I wait or Is there a problem I have to fix
pcaexplorer pca rna-seq written 5 weeks ago by roysense • 0 • updated 5 weeks ago by Kevin Blighe ♦ 65k
4
votes
1
answer
169
views
1
answer
Genotype PCA from genotype matrix
pca genotype snp written 6 weeks ago by i.sudbery ♦ 9.2k
1
vote
1
answer
130
views
1
answer
Finding outlier replicates of PCA plot
pca microarray written 6 weeks ago by Microuser • 0 • updated 6 weeks ago by JC ♦ 11k
4
votes
2
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234
views
7 follow
2
answers
change axis scale on ggplot2
R ggplot pca snp written 7 weeks ago by niyomiw88 • 0 • updated 6 weeks ago by RamRS ♦ 30k
1
vote
1
answer
143
views
1
answer
PCA loadings/roation : different variables depending on the code
factominer loading pca rna-seq prcomp written 7 weeks ago by camillab. • 30 • updated 7 weeks ago by Kevin Blighe ♦ 65k
53
votes
0
answers
11k
views
62 follow
0
answers
Tutorial: Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
1000 genomes tutorial pca plink written 2.1 years ago by Kevin Blighe ♦ 65k
65
votes
0
answers
14k
views
59 follow
0
answers
Tutorial: Produce PCA bi-plot for 1000 Genomes Phase III in VCF format (old)
vcf 1000 genomes tutorial pca plink written 3.1 years ago by Kevin Blighe ♦ 65k
2
votes
2
answers
160
views
2
answers
using hclust object from FactoMineR::HCPC to force clustering in pheatmap
factorminer hcpc pca rna-seq written 10 weeks ago by komal.rathi • 3.7k
3
votes
1
answer
143
views
1
answer
PCA trasformation on Z scored data
scale logtransform pca bulkrnaseq written 10 weeks ago by camillab. • 30 • updated 10 weeks ago by Kevin Blighe ♦ 65k
1
vote
3
answers
271
views
5 follow
3
answers
Extracting Genes that contribute to 1st PC
gene wgcna pca rna-seq written 3 months ago by reara • 10 • updated 11 weeks ago by andres.firrincieli • 870
0
votes
0
answers
104
views
0
answers
Scaling and centering of SNP genotype data in .bed format in r for use in PCA?
pcadapt R pca snp bed written 11 weeks ago by bntjoanne • 10
1
vote
1
answer
140
views
1
answer
Relative variance in PCA of scaled data of scRNA-Seq
variance scrna-seq pca seurat written 3 months ago by jomo018 • 610
1
vote
1
answer
135
views
1
answer
PCAtools data file not linking to metadata file
R pcatools pca rna-seq kevin blighe written 3 months ago by bryce.plu • 10
1
vote
1
answer
195
views
1
answer
Batch effect identification using PCA
targeted assay R pca qrt-pcr batch effect written 3 months ago by mohammedtoufiq91 • 110
2
votes
1
answer
217
views
1
answer
Plotting PCA plot in DESeq2 on SVA corrected counts
sva deseq2 pca written 3 months ago by Mozart • 200
1
vote
2
answers
167
views
2
answers
PCA plot on genes and color by batch and plate information
ggfortify ggplot2 pca factoextra reshape2 written 3 months ago by mohammedtoufiq91 • 110
1
vote
0
answers
175
views
0
answers
PCA: log transform and scale=T/F?
log R pca scale rna-seq written 3 months ago by camillab. • 30
4
votes
1
answer
201
views
1
answer
Can one plot % of variance using the plotMDS function?
pcoa plotmds pca limma % of varience written 3 months ago by harelarik • 70 • updated 3 months ago by Gordon Smyth • 1.9k
3
votes
1
answer
343
views
6 follow
1
answer
Is plotMDS (from limma package) a PCA (Principal Component Analysis) or a PCoA (Principal Coordinate Analysis)?
R plotmds pca limma rna-seq written 3 months ago by harelarik • 70 • updated 3 months ago by Gordon Smyth • 1.9k
2
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0
answers
196
views
0
answers
PCA value for integrated analysis in scRNA
scrna pca integration seurat written 3 months ago by ek699 • 0
0
votes
0
answers
126
views
0
answers
PCs presentation on geographic map
pca map snp written 4 months ago by melania 2282 • 90 • updated 4 months ago by ATpoint ♦ 39k
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