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Why in Heatmap plot my case and control samples of single cell dataset are not well clustered?
DESeq2 single-cell Heatmap
updated 3 months ago by 40k • written 3 months ago by ▴ 70
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0
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290
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Why DEG analysis of the same region in two different datasets results in different sets of DEGs?
single integration cell DEG design analysis
6 months ago by paria ▴ 70
1
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4
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697
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Why my single cell cluster is splitted?
clustering single-cell
updated 6 months ago by ★ 25k • written 6 months ago by ▴ 70
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2
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319
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If using singeR return more clusters than available ones should I do reclustering?
singleR
updated 6 months ago by ★ 15k • written 6 months ago by ▴ 70
2
votes
2
replies
535
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Should I necessarily use cluster evaluation tools for my single cell dataset?
single-cell cluster-evaluation scclusteval
7 months ago by paria ▴ 70
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0
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408
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integration using rPCA with reference or without it?
integration Seurat rPCA Single-cell
7 months ago by paria ▴ 70
2
votes
4
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1.0k
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How to convert Seurat object to sce object retaining the HVG
HVG single-cell SingleCellExperiment seurat
updated 26 days ago by 3.0k • written 7 months ago by ▴ 70
1
vote
1
reply
612
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singleR annotation shows overlapping clusters
single cluster cell annotation singleR Seurat
updated 7 months ago by ★ 15k • written 7 months ago by ▴ 70
3
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3
replies
1.3k
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What should I do if the gene IDs in my reference dataset and test dataset are different
gene-ID RNA-seq R singleR
7 months ago by paria ▴ 70
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2
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1.1k
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How to make a Dotplot like this in R for my clustered single cell data set
data single DotPlot cell
10 months ago by paria ▴ 70
1
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5
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942
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How do I know if I'm overcorrecting my single cell data
Rpca sn-RNA overcorrection seq seurat CCA
updated 10 months ago by ★ 15k • written 10 months ago by ▴ 70
2
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2
replies
1.9k
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How should I solve the error: comparison (3) is possible only for atomic and list types
single ScaleData cell rpca analysis
updated 11 months ago by 134k • written 11 months ago by ▴ 70
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2
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419
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Does chemistry have significant effects on my single nucleus dataset?
single-nucleus chemistry dataset
11 months ago by paria ▴ 70
1
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4
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788
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Single cell cluster evaluation does not output reasonable number of stable clusters
RNA scclusteval single-cell integration harmony sequencing
7 months ago by paria ▴ 70
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3
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1.2k
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How do I know the SNPS which are removed when clumping are in a LD block or SNPs not existed in 1000 Genome
Randomization data clumping Mendelian GWAS
updated 23 months ago by 86k • written 23 months ago by ▴ 70
1
vote
3
replies
685
views
How to process batches to be able to correct for its effect
batch-correction sample-randomization
updated 2.1 years ago by 12k • written 2.1 years ago by ▴ 70
0
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0
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433
views
Do I need to include the "ins:me:alu" line for my MR analysis
Randomization Mendelian data stat GWAS Summary
2.2 years ago by paria ▴ 70
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0
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565
views
How to update rsid given chromosome number, chr position, a1 and a2
SNP ID
2.3 years ago by paria ▴ 70
0
votes
3
replies
925
views
Cell composition in each condition of single cell data
cell composition single-cell scProportionTest
2.5 years ago by paria ▴ 70
6
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9
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4.1k
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regressing out covariate from Seurat integrated data
single-cell seurat
updated 20 months ago by ▴ 10 • written 2.6 years ago by ▴ 70
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0
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593
views
Integration or not?
single-cell RNA sequencing seurat integration
2.6 years ago by paria ▴ 70
4
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8
replies
1.7k
views
Unused argument in R
R
2.6 years ago by paria ▴ 70
2
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7
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2.5k
views
How to regress out variants using SCTransform function?
Single-nuclei RNA sequencing SCTransform Seurat
2.6 years ago by paria ▴ 70
0
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0
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553
views
single-nuclei 10X genomics sequencing metrics
RNA-Seq sequence
2.9 years ago by paria ▴ 70
0
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0
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750
views
Integration of 10X genomics single-nuclei RNA seq datasets
RNA-Seq R sequencing
updated 3.0 years ago by 20 • written 3.1 years ago by ▴ 70
7
votes
2
replies
3.4k
views
single-nuclei 10X genomics
RNA-Seq R
updated 3.1 years ago by ★ 15k • written 3.1 years ago by ▴ 70
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