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Comment: Comment: What number components should I use if I want to show 2D and 3D UMAP
3.2 years ago Guandong Shang ▴ 40
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2
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2.0k
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What number components should I use if I want to show 2D and 3D UMAP
scater UAMP scRNAseq
3.2 years ago Guandong Shang ▴ 40
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941
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Answer: Answer: Converting from TAIR 8 to TAIR11
3.3 years ago Guandong Shang ▴ 40
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0
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1.8k
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Comment: Comment: how to plot a fitting line on the testPseudotime
3.3 years ago Guandong Shang ▴ 40
0
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2
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1.8k
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how to plot a fitting line on the testPseudotime
Pseudotime testPseudotime TSCAN SingleCell OSCA
3.3 years ago Guandong Shang ▴ 40
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1.9k
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Comment: Comment: how to do downstram analysis to cells which are subsetted after MNN batch-correc
3.4 years ago Guandong Shang ▴ 40
4
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2
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1.9k
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how to do downstram analysis to cells which are subsetted after MNN batch-correction
batchelor fastMNN scRNAseq
3.4 years ago Guandong Shang ▴ 40
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4
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3.0k
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how to make the "reconstructed" value in intergated scRNA-seq UMAP plot more readable
scater batchelor scRNAseq fastMNN
updated 3.4 years ago by ★ 29k • written 3.4 years ago by ▴ 40
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0
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2.7k
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Comment: Comment: Subclustering after MNN batch-correction
3.4 years ago Guandong Shang ▴ 40
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0
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3.0k
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Comment: Comment: how to make the "reconstructed" value in intergated scRNA-seq UMAP plot more rea
3.4 years ago Guandong Shang ▴ 40
0
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0
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3.0k
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Comment: Comment: how to make the "reconstructed" value in intergated scRNA-seq UMAP plot more rea
3.4 years ago Guandong Shang ▴ 40
0
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0
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1.7k
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how to calculate similarity between each cluster in scRNA and bulk RNA-seq
SingleR scRNAseq
3.4 years ago Guandong Shang ▴ 40
0
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0
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2.7k
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Comment: Comment: FeaturePlot in scater
3.5 years ago Guandong Shang ▴ 40
3
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2
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2.7k
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FeaturePlot in scater
scater OSCA
3.5 years ago Guandong Shang ▴ 40
0
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0
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1.9k
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Comment: Comment: Can GSVA be applied in several sample type and each type only have two replicate
3.5 years ago Guandong Shang ▴ 40
1
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2
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1.9k
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Can GSVA be applied in several sample type and each type only have two replicates ?
GSVA
4.3 years ago • updated 3.5 years ago Guandong Shang ▴ 40
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0
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3.2k
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Comment: Comment: what's the difference between this two AnnotationDbi::select type in GO select
4.3 years ago Guandong Shang ▴ 40
0
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1
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3.2k
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Comment: Comment: what's the difference between this two AnnotationDbi::select type in GO select
4.3 years ago Guandong Shang ▴ 40
1
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6
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3.2k
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what's the difference between this two AnnotationDbi::select type in GO select
GO.db AnnotationDbi
updated 4.3 years ago by • 0 • written 4.3 years ago by ▴ 40
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0
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1.7k
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Answer: Answer: Help me do a gene enrichment analysis
4.3 years ago Guandong Shang ▴ 40
0
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1
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2.3k
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Comment: Comment: lfcShrink probelm in many 0 count genes RNA-seq data
4.3 years ago Guandong Shang ▴ 40
0
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1
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2.3k
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Comment: Comment: lfcShrink probelm in many 0 count genes RNA-seq data
4.3 years ago Guandong Shang ▴ 40
1
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4
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3.9k
views
weird MAplot or volcano plot of DESeq2 diff result
DESeq2
updated 4.3 years ago by 43k • written 4.3 years ago by ▴ 40
1
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5
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2.3k
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lfcShrink probelm in many 0 count genes RNA-seq data
ashr DESeq2 apeglm
updated 4.3 years ago by 43k • written 4.3 years ago by ▴ 40
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0
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3.9k
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Comment: Comment: weird MAplot or volcano plot of DESeq2 diff result
4.3 years ago Guandong Shang ▴ 40
0
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0
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3.9k
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Comment: Comment: weird MAplot or volcano plot of DESeq2 diff result
4.3 years ago Guandong Shang ▴ 40
2
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1
reply
40k
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Answer: Answer: DESeq2 normalization vs VST vs rlog
4.6 years ago Guandong Shang ▴ 40
3
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2
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1.3k
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Should I create a new class or using Common Classes
GenomicRanges
updated 4.6 years ago by 16k • written 4.6 years ago by ▴ 40
0
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0
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1.0k
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how to construct a SNPlocs-class by myself
BSgenome SNPlocs
4.7 years ago Guandong Shang ▴ 40
0
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0
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2.0k
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Comment: Comment: The compare result is different in score and Conc in DiffBind
4.9 years ago Guandong Shang ▴ 40
0
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1
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2.0k
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Comment: Comment: The compare result is different in score and Conc in DiffBind
4.9 years ago Guandong Shang ▴ 40
1
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2
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1.1k
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How to make BiocParallel work in DiffBind when working under windows system
DiffBind
updated 4.9 years ago by 25k • written 4.9 years ago by ▴ 40
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1
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2.0k
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Comment: Comment: The compare result is different in score and Conc in DiffBind
4.9 years ago Guandong Shang ▴ 40
0
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0
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2.0k
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Comment: Comment: The compare result is different in score and Conc in DiffBind
4.9 years ago Guandong Shang ▴ 40
1
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7
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2.0k
views
Conc_1 in differnet dba.report result is slightly different
DiffBind
updated 4.9 years ago by ★ 5.2k • written 4.9 years ago by ▴ 40
1
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8
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2.0k
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The compare result is different in score and Conc in DiffBind
DiffBind
4.9 years ago Guandong Shang ▴ 40
0
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0
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2.0k
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Answer: Answer: The compare result is different in score and Conc in DiffBind
4.9 years ago Guandong Shang ▴ 40
0
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0
replies
2.0k
views
Answer: Answer: Conc_1 in differnet dba.report result is slightly different
4.9 years ago Guandong Shang ▴ 40
0
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0
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2.0k
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Comment: Comment: Conc_1 in differnet dba.report result is slightly different
4.9 years ago Guandong Shang ▴ 40
0
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0
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2.0k
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Comment: Comment: Conc_1 in differnet dba.report result is slightly different
4.9 years ago Guandong Shang ▴ 40
0
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1
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2.0k
views
Comment: Comment: Conc_1 in differnet dba.report result is slightly different
4.9 years ago Guandong Shang ▴ 40
0
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0
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2.1k
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Comment: Comment: first error: could not find function "readGAlignments" in BiocParallel
4.9 years ago Guandong Shang ▴ 40
3
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3
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2.1k
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first error: could not find function "readGAlignments" in BiocParallel
BiocParallel
4.9 years ago Guandong Shang ▴ 40
2
votes
5
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1.7k
views
how to get the estimated libSize in DiffBind
diffbind
updated 5.1 years ago by ★ 5.2k • written 5.5 years ago by ▴ 40
1
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2
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1.0k
views
Can I completely repeat the DiffBind results using DESeq2?
diffbind
updated 5.1 years ago by ★ 5.2k • written 5.5 years ago by ▴ 40
0
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0
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15k
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Comment: C: DESeq2: one condition vs multiple combined
5.2 years ago Guandong Shang ▴ 40
0
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1
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15k
views
Comment: C: DESeq2: one condition vs multiple combined
5.2 years ago Guandong Shang ▴ 40
2
votes
5
replies
1.9k
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stat value is throwed out after lfcShrink in DESeq2
deseq2
updated 15 months ago by 43k • written 5.3 years ago by ▴ 40
0
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1
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4.8k
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Comment: C: How to get all possible comparisons in DiffBind
5.5 years ago Guandong Shang ▴ 40
0
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0
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1.7k
views
Comment: C: how to get the estimated libSize in DiffBind
5.5 years ago Guandong Shang ▴ 40
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