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Showing top results for tag: Pca • reset
9
votes
5
replies
26k
views
PC3 & PC2 using plotPCA function in R
R plotPCA PCA
updated 1 day ago by 44k • written 7.6 years ago by ▴ 710
1
vote
2
replies
168
views
Dealing with outliers for differential expression in proteomics
proteomics PCA DEA outliers limma
updated 1 day ago by 85k • written 2 days ago by • 0
0
votes
0
replies
131
views
News: Multivariate Data Analysis with R and vegan course
Multivariate Ordination-Methods PCA PCoA
5 days ago by carlopecoraro2 ★ 2.6k
2
votes
4
replies
307
views
coordinate vs contributions for the variables in PCA using FactoMineR
PCA
updated 8 days ago by 5.8k • written 8 days ago by ▴ 60
1
vote
4
replies
328
views
Bulk RNA seq PCA plot issues
RNA-seq PCA
updated 10 days ago by 44k • written 10 days ago by • 0
2
votes
0
replies
144
views
Blog: How Seurat PCA projection, KNN and MNN for label transfer work
R RNA-seq scRNA-seq PCA
updated 10 days ago by 44k • written 11 days ago by ★ 4.4k
106
votes
109
replies
52k
views
29 follow
Tutorial: Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
1000genomes PLINK PCA
updated 12 days ago by 4.3k • written 6.2 years ago by 88k
3
votes
6
replies
440
views
PCA for count data
PCA
17 days ago by QX ▴ 60
0
votes
0
replies
182
views
Help with EIGENSOFT's SmartPCA
SmartPCA EIGENSOFT PCA
24 days ago by Junaid • 0
0
votes
5
replies
566
views
Issue understanding ATAC-seq PCA
ATAC-seq PCA
updated 4 weeks ago by 4.3k • written 4 weeks ago by ▴ 10
4
votes
5
replies
620
views
LD Pruning in GWAS
PLINK PCA pruning LD GWAS
updated 9 weeks ago by 4.5k • written 9 weeks ago by ▴ 30
0
votes
2
replies
503
views
Explaining my heatmap for PC1 and my PC2 with gene list
pca heatmap
updated 9 weeks ago by 88k • written 3 months ago by • 0
0
votes
1
reply
273
views
PCA Genotyping rate 1000genome and own data
quality genotypingrate pca plink genomics
updated 3 months ago by 4.3k • written 3 months ago by • 0
1
vote
0
replies
165
views
Removal of samples with weird log-CPM distribution or voomWithQualityWeights?
voomWithQualityWeights limma PCA outliers
3 months ago by t.fortunato.asquini ▴ 10
0
votes
1
reply
281
views
PCA Visualization error in R - arguments imply differing number of rows
SNPs PCA GBS LINUX r
updated 5 months ago by 12k • written 5 months ago by • 0
4
votes
9
replies
1.0k
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA R VARIANCE
updated 5 months ago by ▴ 150 • written 5 months ago by ▴ 20
0
votes
2
replies
394
views
Error in plotting PCA plot in seurat
PCA single-cell seurat scRNA RNA
updated 5 months ago by 44k • written 5 months ago by • 0
0
votes
1
reply
359
views
Finding batch and outlayers
Pca
updated 6 months ago by ▴ 460 • written 6 months ago by • 0
0
votes
0
replies
284
views
scRNA Cluster frequency
CV PCA scRNA Cluster-Frequency
6 months ago by Nitin • 0
0
votes
2
replies
471
views
WGCNA
PCA WGCNA EIGENGENE
6 months ago by rajasekargutha ▴ 60
0
votes
0
replies
209
views
How can I plot the PCA with the raw count mRNA seq data?
PCA normalization
updated 6 months ago by 44k • written 6 months ago by ▴ 20
1
vote
2
replies
676
views
Putting colors of different samples on PCA plot
PCA
updated 6 months ago by 44k • written 6 months ago by • 0
0
votes
0
replies
276
views
details about PCA in plink 2.0: eigenvectors, PCs, scores
gwas plink pca
7 months ago by kaybelter • 0
0
votes
1
reply
376
views
PCA script correction
correction script PCA
updated 7 months ago by ★ 2.1k • written 7 months ago by • 0
1
vote
6
replies
719
views
Quest about the input data for PCA analysis
PCA
7 months ago by tujuchuanli ▴ 130
2
votes
3
replies
557
views
representing PCs as marginal distribution on x and Y acis
PCAtool Deseq2 Pcaplot PCA
updated 7 months ago by ★ 3.0k • written 7 months ago by • 0
0
votes
4
replies
543
views
PCA Plot in Single-cell RNA-seq Data
RNA-seq PCA single cell
8 months ago by Darya • 0
1
vote
2
replies
648
views
PCA results from PLINK and Hail vastly different
gwas plink hail pca
updated 8 months ago by 11k • written 8 months ago by • 0
0
votes
6
replies
925
views
Making PCA plot using variance instead of counts on Sleuth (plot_pca)
Sleuth RNAseq PCA
updated 8 months ago by 44k • written 8 months ago by • 0
4
votes
1
reply
442
views
What does PCA really tells about Biological data?
techniques reduction Dimension PCA
updated 8 months ago by 8.7k • written 8 months ago by ▴ 810
0
votes
5
replies
743
views
PCA from plink2 for SGDP using a pangenome and DeepVariant
umap DeepVariant pangenome plink2 pca
updated 8 months ago by ▴ 450 • written 8 months ago by ▴ 100
7
votes
8
replies
970
views
8 follow
PCA plot interpretation (single population)
PCA GWAS pruning
updated 5 weeks ago by • 0 • written 9 months ago by ▴ 20
1
vote
2
replies
694
views
Should centering and scaling be done on methylation beta values for principal component analysis (PCA)?
PCA PCAtools
9 months ago by Pratik ★ 1.1k
0
votes
5
replies
722
views
An question about PCA analysis of protein data in R
PCA
updated 10 months ago by 44k • written 10 months ago by • 0
1
vote
10
replies
3.0k
views
Scanpy Pearson residual PCA error
python scRNA scanpy PCA
updated 11 months ago by • 0 • written 2.2 years ago by ▴ 70
2
votes
3
replies
627
views
Dimensionality reduction on data sets with variable dimensions
PCA dimensionality_reduction RNA_secondary_structure
updated 10 months ago by ★ 28k • written 11 months ago by ▴ 80
1
vote
9
replies
3.7k
views
PCAtools data file not linking to metadata file
R PCA RNA-Seq PCAtools
updated 11 months ago by 85k • written 4.4 years ago by ▴ 10
4
votes
6
replies
880
views
Unexpected separation of RNA-seq samples on PCA plot
depletion PCA rRNA plot RNA-seq
11 months ago by Tihana ▴ 10
0
votes
0
replies
455
views
Seurat: Visualize individual cell clusters colored by meta.data variable
UMAP PCA Seurat
12 months ago by Sergio • 0
7
votes
13
replies
1.3k
views
deal with PCA and my samples
PCA DEG meta-analysis
12 months ago by ali • 0
1
vote
2
replies
613
views
Which embedding for clustering of cells in single-cell RNAseq?
tSNE ICA clustering PCA UMAP
12 months ago by e.r.zakiev ▴ 230
0
votes
2
replies
2.3k
views
Removing constant/zero columns for PCA?
R pca
updated 12 months ago by ★ 28k • written 12 months ago by ▴ 150
2
votes
5
replies
1.3k
views
Number of accessible regions included by DESeq2 to generate the PCA plot with the nf-core ATACseq pipeline ?
nf-core atac-seq PCA DESeq2
updated 13 months ago by ★ 2.6k • written 13 months ago by • 0
0
votes
0
replies
320
views
Question about umap using different numbers of pca components as initialization
umap pca dynamo scRNAseq
14 months ago by Zack • 0
8
votes
9
replies
1.7k
views
PCA proteomic DEP
PCA DEP
updated 14 months ago by 88k • written 14 months ago by ▴ 370
0
votes
0
replies
573
views
Principal component analysis (PCA) from Desmond output file
Desmond PCA prody Simulation
14 months ago by bhavya2269 • 0
0
votes
2
replies
622
views
Question with manipulating OD gene list when running PCA
Pagoda2 PCA RNA-seq Seurat
15 months ago by K • 0
8
votes
5
replies
1.4k
views
Should primary tumor RNA-Seq match their derived cell lines and PDXs? And which dimensionality reduction method should I use?
PDX dimensionality-reduction RNA-Seq PCA
15 months ago by sarahgzb ▴ 40
0
votes
1
reply
618
views
Should genotype PCA in eQTL analysis be performed using all SNPs? or can be with a subset of SNPs?
genotype eQTL SNP PCA
updated 16 months ago by 4.5k • written 16 months ago by ▴ 20
0
votes
0
replies
671
views
Principal component analysis using plotPCA of deepTools
plotpca deeptools pca
17 months ago by Rajendra KC ▴ 20
50 results • Page 1 of 1
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What p-value do you mean? When and how did you calculate it?
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What about some of the well known enhancer regions, the globin locus LCR? Likely to be highly sequenceable, and yet not on exome panels.
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