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4
votes
7
replies
1.1k
views
Very low RNA splicing rate for pulmonary AT2 cells
RNA-velocity scVelo scRNA-seq splicing
9 months ago by e.r.zakiev ▴ 230
1
vote
2
replies
980
views
Applicability of the SoupX ambient mRNA decontamination technique to fixed and/or multiplexed scRNAseq experiments
SoupX scRNA-seq
10 months ago by e.r.zakiev ▴ 230
2
votes
1
reply
713
views
Data scaling in single-cell RNAseq - sample-wise or on the full set?
scRNA-seq seurat
updated 12 months ago by ★ 3.0k • written 12 months ago by ▴ 230
0
votes
0
replies
348
views
cNMF vs LIGER
NMF correction batch
14 months ago by e.r.zakiev ▴ 230
0
votes
0
replies
486
views
P-value for comparing GSVA scores
GSVA
updated 15 months ago by 44k • written 15 months ago by ▴ 230
1
vote
2
replies
732
views
Which embedding for clustering of cells in single-cell RNAseq?
tSNE ICA clustering PCA UMAP
15 months ago by e.r.zakiev ▴ 230
17
votes
7
replies
3.8k
views
When should I NOT apply batch correction for my single-cell RNAseq data?
scRNA-seq batch-correction
updated 15 months ago by 44k • written 15 months ago by ▴ 230
6
votes
5
replies
1.0k
views
barcodes not show up in overrepresented sequences in FASTQC
ribo-seq barcodes
updated 18 months ago by 148k • written 18 months ago by ▴ 230
3
votes
2
replies
614
views
Panther db Reference List
pantherdb enrichment-tests
updated 20 months ago by 44k • written 20 months ago by ▴ 230
3
votes
1
reply
598
views
Why not use ONLY promoter-bound peaks when testing for enrichment in differentially-bound regions?
ChIP-seq ChIPseeker GO
updated 22 months ago by 44k • written 22 months ago by ▴ 230
2
votes
5
replies
1.7k
views
msigdbr returns the same genesets for mouse as in for human,
msigdbr
updated 22 months ago by 13k • written 22 months ago by ▴ 230
12
votes
8
replies
2.5k
views
Sorting a STAR-output bam file with samtools leads to a significant reduction in size of the sorted bam file
samtools STAR
22 months ago by e.r.zakiev ▴ 230
0
votes
0
replies
551
views
Double-pass with STAR for better detection of spliced variants in assessing quality of FFPE RNAseq data: should I go for it?
RNA-seq STAR
updated 22 months ago by 44k • written 22 months ago by ▴ 230
3
votes
1
reply
869
views
Which reference transcriptome/genome to use for mus musculus if I know the particular strain involved in the experiment?
mice alignment genome transcriptome
updated 23 months ago by 44k • written 23 months ago by ▴ 230
4
votes
1
reply
697
views
TruSeq Illumina adapters are BLASTed with a high confidence to some genes/terms
RNAseq adapters Truseq BLAST
updated 23 months ago by 86k • written 23 months ago by ▴ 230
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