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Comment: C: Discrepancy between cell type and cluster using SingleCellExperiment and SingleR
4.1 years ago lirongrossmann ▴ 80
0
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6
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3.0k
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Discrepancy between cell type and cluster using SingleCellExperiment and SingleR
singlecell singlecellexperiment umap singleR
updated 4.1 years ago by ★ 28k • written 4.1 years ago by ▴ 80
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0
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3.0k
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Comment: C: Cluster location in UMAP using SingleCellExperiment and SingleR
4.1 years ago lirongrossmann ▴ 80
0
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0
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1.5k
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Comment: C: Raw counts for reference dataset in single cell rnaseq
4.1 years ago lirongrossmann ▴ 80
1
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3
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1.5k
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Raw counts for reference dataset in single cell rnaseq
single cell celldex singleR
updated 4.1 years ago by ★ 28k • written 4.1 years ago by ▴ 80
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0
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1.6k
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Comment: C: marker genes in single cell experiment
4.1 years ago lirongrossmann ▴ 80
0
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0
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1.7k
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Comment: C: most correlated genes in SingleR
4.1 years ago lirongrossmann ▴ 80
0
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0
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861
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Single cell WGS and ATAC-seq tools
single cell singlecellexperiment atac seq WGS
4.1 years ago lirongrossmann ▴ 80
0
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0
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2.5k
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Comment: C: Trajectory analysis for single cell sequencing
4.1 years ago lirongrossmann ▴ 80
0
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1
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2.5k
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Comment: C: Trajectory analysis for single cell sequencing
4.1 years ago lirongrossmann ▴ 80
0
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1
reply
1.4k
views
Handling outliers in Deseq2
outliers deseq2 logfoldchange
6.7 years ago lirongrossmann ▴ 80
9
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2
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5.8k
views
log fold change threshold in Deseq2 - using lfcthreshold
lfcthreshold deseq2
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 80
0
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1
reply
1.3k
views
Base mean count threshold
deseq2 base
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 80
0
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1
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3.4k
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Comment: C: Batch effect removal with Deseq2
6.8 years ago lirongrossmann ▴ 80
1
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3
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3.4k
views
Batch effect removal with Deseq2
deseq2 batch effect removebatcheffect() limma
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 80
2
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2
replies
4.7k
views
choosing the normalization method (rlog, variance stabilizing transformation)
variancestabilizingtransformation rlog transformation deseq2
updated 10 months ago by • 0 • written 6.8 years ago by ▴ 80
1
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2
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1.7k
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an unexplained phenomenon using variance stabilizing transformation for downstream analysis
variancestabilizingtransformation normalization
6.8 years ago lirongrossmann ▴ 80
0
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0
replies
1.7k
views
Answer: A: an unexplained phenomenon using variance stabilizing transformation for downstre
6.8 years ago lirongrossmann ▴ 80
1
vote
1
reply
780
views
NA adjp with extremely low p value
deseq2 adjusted pvalue
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 80
0
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1
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1.4k
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Distribution of transformed data using VST
variancestabilizingtransformation deseq2
updated 6.9 years ago by 42k • written 6.9 years ago by ▴ 80
0
votes
1
reply
519
views
Deseq2 for small matched samples
deseq2
updated 6.9 years ago by 42k • written 6.9 years ago by ▴ 80
0
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1
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1.8k
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Comment: C: calculating logfold change from variance stabilizing transformation
6.9 years ago lirongrossmann ▴ 80
0
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1
reply
1.8k
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Comment: C: calculating logfold change from variance stabilizing transformation
6.9 years ago lirongrossmann ▴ 80
2
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5
replies
1.8k
views
calculating logfold change from variance stabilizing transformation
deseq2 logfoldchange variancestabilizingtransformation
updated 6.9 years ago by 42k • written 6.9 years ago by ▴ 80
0
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0
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2.9k
views
Comment: C: comparing strand-specific counts to unstranded counts
6.9 years ago lirongrossmann ▴ 80
0
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1
reply
2.9k
views
Comment: C: comparing strand-specific counts to unstranded counts
6.9 years ago lirongrossmann ▴ 80
0
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1
reply
2.9k
views
Comment: C: comparing strand-specific counts to unstranded counts
6.9 years ago lirongrossmann ▴ 80
0
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1
reply
2.9k
views
Comment: A: comparing strand-specific counts to unstranded counts
6.9 years ago lirongrossmann ▴ 80
2
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8
replies
2.9k
views
comparing strand-specific counts to unstranded counts
rnaseq strand deseq2
6.9 years ago lirongrossmann ▴ 80
0
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1
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2.6k
views
Comment: C: Quantile normalization and Deseq2
6.9 years ago lirongrossmann ▴ 80
0
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3
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2.6k
views
Quantile normalization and Deseq2
quantile normalization deseq2
updated 6.9 years ago by 42k • written 6.9 years ago by ▴ 80
12
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1
reply
7.6k
views
identifying the samples on plotPCA
deseq2 plotpca PCa
updated 7.0 years ago by 42k • written 7.0 years ago by ▴ 80
1
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4
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1.9k
views
expression matrix with varianceStabilizingTransformation
deseq2 variancestabilizingtransformation rnaseq
updated 7.0 years ago by 42k • written 7.0 years ago by ▴ 80
0
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1
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1.9k
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Comment: C: expression matrix with varianceStabilizingTransformation
updated 7.0 years ago by 42k • written 7.0 years ago by ▴ 80
0
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0
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1.9k
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Comment: C: expression matrix with varianceStabilizingTransformation
7.0 years ago lirongrossmann ▴ 80
0
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1
reply
1.4k
views
Comment: C: differential splicing events and covariates
7.0 years ago lirongrossmann ▴ 80
0
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3
replies
1.4k
views
differential splicing events and covariates
limma rna-seq alternative splicing
updated 7.0 years ago by 51k • written 7.0 years ago by ▴ 80
0
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0
replies
3.5k
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Comment: C: Different PCA plots using rlog and vsd on the same data set
7.0 years ago lirongrossmann ▴ 80
0
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0
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2.7k
views
Comment: C: RangedSummarizedExperiment in Deseq2 and DESeqDataSetFromMatrix
7.0 years ago lirongrossmann ▴ 80
0
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0
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2.7k
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Comment: C: RangedSummarizedExperiment in Deseq2 and DESeqDataSetFromMatrix
7.0 years ago lirongrossmann ▴ 80
0
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4
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2.7k
views
RangedSummarizedExperiment in Deseq2 and DESeqDataSetFromMatrix
rangedsummarizedexperiment deseqdatasetfrommatrix deseq2 tximport
7.0 years ago lirongrossmann ▴ 80
0
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6
replies
3.5k
views
Different PCA plots using rlog and vsd on the same data set
deseq2 rlog variancestabilizingtransformation plotpca pca
7.0 years ago lirongrossmann ▴ 80
0
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0
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3.5k
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Comment: A: Different PCA plots using rlog and vsd on the same data set
7.0 years ago lirongrossmann ▴ 80
0
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1
reply
2.8k
views
Comment: A: Choosing genes for clustering
7.0 years ago lirongrossmann ▴ 80
0
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5
replies
2.8k
views
Choosing genes for clustering
limma clustering differential gene expression hierarchical clustering feature selection
7.1 years ago • updated 7.0 years ago lirongrossmann ▴ 80
0
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1
reply
3.5k
views
Comment: A: Different PCA plots using rlog and vsd on the same data set
7.0 years ago lirongrossmann ▴ 80
0
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1
reply
1.7k
views
Comment: C: Selecting genes that best separate between two groups
updated 7.0 years ago by 51k • written 7.0 years ago by ▴ 80
1
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3
replies
1.7k
views
Selecting genes that best separate between two groups
limma genefilter ttest clustering TPM
7.1 years ago • updated 7.0 years ago lirongrossmann ▴ 80
0
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0
replies
2.8k
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Comment: A: Choosing genes for clustering
7.1 years ago lirongrossmann ▴ 80
0
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0
replies
986
views
Combined strand specific and unstranded samples
strand rnaseq differential gene expression batch effect counts
7.1 years ago lirongrossmann ▴ 80
56 results • Page 1 of 2
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