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0
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0
replies
261
views
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
Ram
40k • written 3 months ago by
paria
▴ 70
0
votes
0
replies
290
views
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
vote
4
replies
697
views
Why my single cell cluster is splitted?
clustering
single-cell
updated 6 months ago by
Mensur Dlakic
★ 25k • written 6 months ago by
paria
▴ 70
0
votes
0
replies
697
views
Comment:
Comment: Why my single cell cluster is splitted?
6 months ago by
paria
▴ 70
0
votes
2
replies
319
views
If using singeR return more clusters than available ones should I do reclustering?
singleR
updated 6 months ago by
jared.andrews07
★ 15k • written 6 months ago by
paria
▴ 70
0
votes
0
replies
535
views
Comment:
Comment: Should I necessarily use cluster evaluation tools for my single cell dataset?
7 months ago by
paria
▴ 70
2
votes
2
replies
535
views
Should I necessarily use cluster evaluation tools for my single cell dataset?
single-cell
cluster-evaluation
scclusteval
7 months ago by
paria
▴ 70
0
votes
0
replies
788
views
Comment:
Comment: Single cell cluster evaluation does not output reasonable number of stable clust
7 months ago by
paria
▴ 70
0
votes
1
reply
788
views
Comment:
Comment: Single cell cluster evaluation does not output reasonable number of stable clust
7 months ago by
paria
▴ 70
0
votes
0
replies
408
views
integration using rPCA with reference or without it?
integration
Seurat
rPCA
Single-cell
7 months ago by
paria
▴ 70
0
votes
1
reply
1.0k
views
Comment:
Comment: How to convert Seurat object to sce object retaining the HVG
7 months ago by
paria
▴ 70
2
votes
4
replies
1.0k
views
How to convert Seurat object to sce object retaining the HVG
HVG
single-cell
SingleCellExperiment
seurat
updated 26 days ago by
Hamid Ghaedi
3.0k • written 7 months ago by
paria
▴ 70
1
vote
1
reply
612
views
singleR annotation shows overlapping clusters
single
cluster
cell
annotation
singleR
Seurat
updated 7 months ago by
jared.andrews07
★ 15k • written 7 months ago by
paria
▴ 70
0
votes
0
replies
1.3k
views
Comment:
Comment: What should I do if the gene IDs in my reference dataset and test dataset are di
7 months ago by
paria
▴ 70
0
votes
1
reply
1.3k
views
Comment:
Comment: What should I do if the gene IDs in my reference dataset and test dataset are di
7 months ago by
paria
▴ 70
3
votes
3
replies
1.3k
views
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
0
votes
1
reply
941
views
Comment:
Comment: How do I know if I'm overcorrecting my single cell data
10 months ago by
paria
▴ 70
0
votes
0
replies
1.1k
views
Comment:
Comment: How to make a Dotplot like this in R for my clustered single cell data set
10 months ago by
paria
▴ 70
0
votes
2
replies
1.1k
views
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
0
votes
0
replies
941
views
Comment:
Comment: How do I know if I'm overcorrecting my single cell data
10 months ago by
paria
▴ 70
1
vote
5
replies
941
views
How do I know if I'm overcorrecting my single cell data
Rpca
sn-RNA
overcorrection
seq
seurat
CCA
updated 10 months ago by
jared.andrews07
★ 15k • written 10 months ago by
paria
▴ 70
2
votes
2
replies
1.9k
views
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
GenoMax
134k • written 11 months ago by
paria
▴ 70
0
votes
0
replies
419
views
Comment:
Comment: Does chemistry have significant effects on my single nucleus dataset?
11 months ago by
paria
▴ 70
0
votes
2
replies
419
views
Does chemistry have significant effects on my single nucleus dataset?
single-nucleus
chemistry
dataset
11 months ago by
paria
▴ 70
1
vote
4
replies
788
views
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
0
votes
1
reply
1.2k
views
Comment:
Comment: How do I know the SNPS which are removed when clumping are in a LD block or SNPs
updated 23 months ago by
Kevin Blighe
86k • written 23 months ago by
paria
▴ 70
0
votes
3
replies
1.2k
views
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
Kevin Blighe
86k • written 23 months ago by
paria
▴ 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
rpolicastro
12k • written 2.1 years ago by
paria
▴ 70
0
votes
1
reply
685
views
Comment:
Comment: How to process batches to be able to correct for its effect
2.1 years ago by
paria
▴ 70
0
votes
0
replies
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
0
votes
0
replies
5.7k
views
Answer:
Answer: Low Fraction Reads in Cells (Cellranger Count Pipeline)
2.3 years ago by
paria
▴ 70
0
votes
0
replies
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
0
replies
925
views
Comment:
Comment: Cell composition in each condition of single cell data
2.5 years ago by
paria
▴ 70
0
votes
0
replies
925
views
Comment:
Comment: Cell composition in each condition of single cell data
2.5 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
0
votes
1
reply
8.4k
views
Comment:
Comment: correct way of analyzing cell proportions in singlecell data
2.5 years ago by
paria
▴ 70
0
votes
0
replies
4.1k
views
Comment:
C: regressing out covariate from Seurat integrated data
2.6 years ago by
paria
▴ 70
6
votes
9
replies
4.1k
views
regressing out covariate from Seurat integrated data
single-cell
seurat
updated 20 months ago by
botloggy
▴ 10 • written 2.6 years ago by
paria
▴ 70
0
votes
0
replies
4.1k
views
Comment:
A: regressing out covariate from Seurat integrated data
2.6 years ago by
paria
▴ 70
0
votes
0
replies
4.1k
views
Comment:
C: regressing out covariate from Seurat integrated data
2.6 years ago by
paria
▴ 70
0
votes
0
replies
593
views
Integration or not?
single-cell RNA sequencing
seurat
integration
2.6 years ago by
paria
▴ 70
0
votes
0
replies
1.7k
views
Comment:
C: Unused argument in R
2.6 years ago by
paria
▴ 70
4
votes
8
replies
1.7k
views
Unused argument in R
R
2.6 years ago by
paria
▴ 70
0
votes
0
replies
2.5k
views
Comment:
C: How to regress out variants using SCTransform function?
2.6 years ago by
paria
▴ 70
0
votes
1
reply
2.5k
views
Comment:
C: How to regress out variants using SCTransform function?
2.6 years ago by
paria
▴ 70
0
votes
1
reply
2.5k
views
Comment:
C: How to regress out variants using SCTransform function?
updated 2.6 years ago by
rpolicastro
12k • written 2.6 years ago by
paria
▴ 70
0
votes
1
reply
2.5k
views
Comment:
C: How to regress out variants using SCTransform function?
updated 2.6 years ago by
rpolicastro
12k • written 2.6 years ago by
paria
▴ 70
2
votes
7
replies
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
votes
0
replies
553
views
single-nuclei 10X genomics sequencing metrics
RNA-Seq
sequence
2.9 years ago by
paria
▴ 70
0
votes
0
replies
750
views
Integration of 10X genomics single-nuclei RNA seq datasets
RNA-Seq
R
sequencing
updated 3.0 years ago by
Biostar
20 • written 3.1 years ago by
paria
▴ 70
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