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1
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2
replies
1.2k
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What number components should I use if I want to show 2D and 3D UMAP
scater UAMP scRNAseq
19 months ago Guandong Shang ▴ 40
0
votes
2
replies
970
views
how to plot a fitting line on the testPseudotime
Pseudotime testPseudotime TSCAN SingleCell OSCA
20 months ago Guandong Shang ▴ 40
4
votes
2
replies
1.1k
views
how to do downstram analysis to cells which are subsetted after MNN batch-correction
batchelor fastMNN scRNAseq
21 months ago Guandong Shang ▴ 40
0
votes
4
replies
2.0k
views
how to make the "reconstructed" value in intergated scRNA-seq UMAP plot more readable
scater batchelor scRNAseq fastMNN
updated 21 months ago by ★ 28k • written 21 months ago by ▴ 40
0
votes
0
replies
982
views
how to calculate similarity between each cluster in scRNA and bulk RNA-seq
SingleR scRNAseq
22 months ago Guandong Shang ▴ 40
3
votes
2
replies
1.7k
views
FeaturePlot in scater
scater OSCA
22 months ago Guandong Shang ▴ 40
1
vote
2
replies
1.1k
views
Can GSVA be applied in several sample type and each type only have two replicates ?
GSVA
2.7 years ago • updated 23 months ago Guandong Shang ▴ 40
1
vote
6
replies
1.9k
views
what's the difference between this two AnnotationDbi::select type in GO select
GO.db AnnotationDbi
updated 2.7 years ago by • 0 • written 2.7 years ago by ▴ 40
1
vote
4
replies
2.9k
views
weird MAplot or volcano plot of DESeq2 diff result
DESeq2
updated 2.8 years ago by 42k • written 2.8 years ago by ▴ 40
1
vote
5
replies
1.4k
views
lfcShrink probelm in many 0 count genes RNA-seq data
ashr DESeq2 apeglm
updated 2.7 years ago by 42k • written 2.8 years ago by ▴ 40
3
votes
2
replies
809
views
Should I create a new class or using Common Classes
GenomicRanges
updated 3.0 years ago by 16k • written 3.0 years ago by ▴ 40
0
votes
0
replies
668
views
how to construct a SNPlocs-class by myself
BSgenome SNPlocs
3.1 years ago Guandong Shang ▴ 40
1
vote
2
replies
793
views
How to make BiocParallel work in DiffBind when working under windows system
DiffBind
updated 3.3 years ago by 25k • written 3.3 years ago by ▴ 40
1
vote
7
replies
1.4k
views
Conc_1 in differnet dba.report result is slightly different
DiffBind
updated 3.3 years ago by ★ 5.2k • written 3.3 years ago by ▴ 40
1
vote
8
replies
1.3k
views
The compare result is different in score and Conc in DiffBind
DiffBind
3.3 years ago Guandong Shang ▴ 40
3
votes
3
replies
1.4k
views
first error: could not find function "readGAlignments" in BiocParallel
BiocParallel
3.3 years ago Guandong Shang ▴ 40
2
votes
5
replies
1.1k
views
how to get the estimated libSize in DiffBind
diffbind
updated 3.5 years ago by ★ 5.2k • written 4.0 years ago by ▴ 40
1
vote
2
replies
751
views
Can I completely repeat the DiffBind results using DESeq2?
diffbind
updated 3.5 years ago by ★ 5.2k • written 3.9 years ago by ▴ 40
1
vote
3
replies
1.1k
views
stat value is throwed out after lfcShrink in DESeq2
deseq2
updated 3.3 years ago by 42k • written 3.7 years ago by ▴ 40
3
votes
3
replies
881
views
A problem about RNA-seq workflow:9 Time course experiments
rnaseqgene
updated 4.0 years ago by 42k • written 4.0 years ago by ▴ 40
0
votes
4
replies
696
views
Some confuse in ?results example of DESeq2
deseq2
updated 4.0 years ago by 42k • written 4.0 years ago by ▴ 40
0
votes
0
replies
975
views
A warning : stop codons that cannot be mapped to an exon in using makeTxDbFromGFF
genomicranges genomicfeatures
4.0 years ago Guandong Shang ▴ 40
2
votes
4
replies
1.4k
views
how to deal with the replicate count when do k-means or someother machine-learning
deseq2
updated 4.1 years ago by 42k • written 4.1 years ago by ▴ 40
3
votes
4
replies
1.1k
views
how to close the recognizes features of type miRNA in "makeTxDbFromGFF"
GenomicFeatures genomicranges
updated 4.1 years ago by 16k • written 4.2 years ago by ▴ 40
1
vote
2
replies
849
views
The coordinate system problem about DiffBind output
diffbind Rory Stark coordinate
updated 4.2 years ago by ★ 5.2k • written 4.2 years ago by ▴ 40
3
votes
2
replies
879
views
Some confuse about the DBA_SCORE_TMM_READS_EFFECTIVE_CPM in DiffBind
diffbind CPM TMM
updated 4.2 years ago by ★ 5.2k • written 4.2 years ago by ▴ 40
0
votes
1
reply
1.0k
views
ChIPSeeker - options(ChIPseeker.downstreamDistance = 500) seems not work
ChIPseeker
4.2 years ago Guandong Shang ▴ 40
0
votes
2
replies
881
views
I am wondering whether Gviz can support a plot like ggridges
Gviz
4.5 years ago Guandong Shang ▴ 40
0
votes
5
replies
1.1k
views
A Problem about seqnames() in GenomicRanges
GenomicRanges
4.7 years ago Guandong Shang ▴ 40
0
votes
1
reply
796
views
I am wondering whether Gviz can plot thin box(noncoding part) directly from GRange
Gviz
updated 4.7 years ago by ▴ 730 • written 4.7 years ago by ▴ 40
30 results • Page 1 of 1
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