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what is the best way to build my design model with DESeq2
design-model DESeq2 single-cell
updated 5 months ago by 4.2k • written 5 months ago by ▴ 90
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446
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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 11 months ago by 44k • written 11 months ago by ▴ 90
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423
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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
14 months ago by paria ▴ 90
3
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4
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1.1k
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Why my single cell cluster is splitted?
clustering single-cell
updated 14 months ago by ★ 27k • written 14 months ago by ▴ 90
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1.1k
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Comment: Comment: Why my single cell cluster is splitted?
14 months ago by paria ▴ 90
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2
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594
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If using singeR return more clusters than available ones should I do reclustering?
singleR
updated 14 months ago by ★ 17k • written 14 months ago by ▴ 90
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749
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Comment: Comment: Should I necessarily use cluster evaluation tools for my single cell dataset?
15 months ago by paria ▴ 90
2
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2
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749
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Should I necessarily use cluster evaluation tools for my single cell dataset?
single-cell cluster-evaluation scclusteval
15 months ago by paria ▴ 90
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0
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1.1k
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Comment: Comment: Single cell cluster evaluation does not output reasonable number of stable clust
15 months ago by paria ▴ 90
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1
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1.1k
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Comment: Comment: Single cell cluster evaluation does not output reasonable number of stable clust
15 months ago by paria ▴ 90
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0
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552
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integration using rPCA with reference or without it?
integration Seurat rPCA Single-cell
15 months ago by paria ▴ 90
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1
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1.6k
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Comment: Comment: How to convert Seurat object to sce object retaining the HVG
15 months ago by paria ▴ 90
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4
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1.6k
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How to convert Seurat object to sce object retaining the HVG
HVG single-cell SingleCellExperiment seurat
updated 8 months ago by 3.2k • written 15 months ago by ▴ 90
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1
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1.0k
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singleR annotation shows overlapping clusters
single cluster cell annotation singleR Seurat
updated 15 months ago by ★ 17k • written 15 months ago by ▴ 90
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0
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2.0k
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Comment: Comment: What should I do if the gene IDs in my reference dataset and test dataset are di
15 months ago by paria ▴ 90
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1
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2.0k
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Comment: Comment: What should I do if the gene IDs in my reference dataset and test dataset are di
15 months ago by paria ▴ 90
3
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3
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2.0k
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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
15 months ago by paria ▴ 90
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1
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1.6k
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Comment: Comment: How do I know if I'm overcorrecting my single cell data
18 months ago by paria ▴ 90
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0
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2.2k
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Comment: Comment: How to make a Dotplot like this in R for my clustered single cell data set
18 months ago by paria ▴ 90
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2
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2.2k
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How to make a Dotplot like this in R for my clustered single cell data set
data single DotPlot cell
18 months ago by paria ▴ 90
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0
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1.6k
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Comment: Comment: How do I know if I'm overcorrecting my single cell data
18 months ago by paria ▴ 90
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5
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1.6k
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How do I know if I'm overcorrecting my single cell data
Rpca sn-RNA overcorrection seq seurat CCA
updated 18 months ago by ★ 17k • written 18 months ago by ▴ 90
2
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2
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2.3k
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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 19 months ago by 142k • written 19 months ago by ▴ 90
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563
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Comment: Comment: Does chemistry have significant effects on my single nucleus dataset?
19 months ago by paria ▴ 90
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2
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563
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Does chemistry have significant effects on my single nucleus dataset?
single-nucleus chemistry dataset
19 months ago by paria ▴ 90
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4
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1.1k
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Single cell cluster evaluation does not output reasonable number of stable clusters
RNA scclusteval single-cell integration harmony sequencing
15 months ago by paria ▴ 90
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1
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1.4k
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Comment: Comment: How do I know the SNPS which are removed when clumping are in a LD block or SNPs
updated 2.6 years ago by 88k • written 2.6 years ago by ▴ 90
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3
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1.4k
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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 2.6 years ago by 88k • written 2.6 years ago by ▴ 90
1
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3
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835
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How to process batches to be able to correct for its effect
batch-correction sample-randomization
updated 2.7 years ago by 13k • written 2.7 years ago by ▴ 90
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1
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835
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Comment: Comment: How to process batches to be able to correct for its effect
2.7 years ago by paria ▴ 90
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0
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529
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Do I need to include the "ins:me:alu" line for my MR analysis
Randomization Mendelian data stat GWAS Summary
2.9 years ago by paria ▴ 90
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0
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7.1k
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Answer: Answer: Low Fraction Reads in Cells (Cellranger Count Pipeline)
3.0 years ago by paria ▴ 90
0
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0
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664
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How to update rsid given chromosome number, chr position, a1 and a2
SNP ID
3.0 years ago by paria ▴ 90
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0
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1.1k
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Comment: Comment: Cell composition in each condition of single cell data
3.1 years ago by paria ▴ 90
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0
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1.1k
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Comment: Comment: Cell composition in each condition of single cell data
3.1 years ago by paria ▴ 90
0
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3
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1.1k
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Cell composition in each condition of single cell data
cell composition single-cell scProportionTest
3.1 years ago by paria ▴ 90
0
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1
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11k
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Comment: Comment: correct way of analyzing cell proportions in singlecell data
3.1 years ago by paria ▴ 90
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0
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5.2k
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Comment: C: regressing out covariate from Seurat integrated data
3.3 years ago by paria ▴ 90
6
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9
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5.2k
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regressing out covariate from Seurat integrated data
single-cell seurat
updated 2.4 years ago by ▴ 10 • written 3.3 years ago by ▴ 90
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5.2k
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Comment: A: regressing out covariate from Seurat integrated data
3.3 years ago by paria ▴ 90
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0
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5.2k
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Comment: C: regressing out covariate from Seurat integrated data
3.3 years ago by paria ▴ 90
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0
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669
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Integration or not?
single-cell RNA sequencing seurat integration
3.3 years ago by paria ▴ 90
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0
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2.0k
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Comment: C: Unused argument in R
3.3 years ago by paria ▴ 90
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8
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2.0k
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Unused argument in R
R
3.3 years ago by paria ▴ 90
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0
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2.9k
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Comment: C: How to regress out variants using SCTransform function?
3.3 years ago by paria ▴ 90
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1
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2.9k
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Comment: C: How to regress out variants using SCTransform function?
3.3 years ago by paria ▴ 90
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1
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2.9k
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Comment: C: How to regress out variants using SCTransform function?
updated 3.3 years ago by 13k • written 3.3 years ago by ▴ 90
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1
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2.9k
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Comment: C: How to regress out variants using SCTransform function?
updated 3.3 years ago by 13k • written 3.3 years ago by ▴ 90
2
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7
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2.9k
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How to regress out variants using SCTransform function?
Single-nuclei RNA sequencing SCTransform Seurat
3.3 years ago by paria ▴ 90
0
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0
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628
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single-nuclei 10X genomics sequencing metrics
RNA-Seq sequence
3.5 years ago by paria ▴ 90
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