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4
votes
7
replies
1.7k
views
Very low RNA splicing rate for pulmonary AT2 cells
RNA-velocity scVelo scRNA-seq splicing
14 months ago by e.r.zakiev ▴ 260
1
vote
2
replies
1.3k
views
Applicability of the SoupX ambient mRNA decontamination technique to fixed and/or multiplexed scRNAseq experiments
SoupX scRNA-seq
15 months ago by e.r.zakiev ▴ 260
2
votes
1
reply
1.1k
views
Data scaling in single-cell RNAseq - sample-wise or on the full set?
scRNA-seq seurat
updated 17 months ago by ★ 3.1k • written 17 months ago by ▴ 260
0
votes
0
replies
474
views
cNMF vs LIGER
NMF correction batch
19 months ago by e.r.zakiev ▴ 260
0
votes
0
replies
655
views
P-value for comparing GSVA scores
GSVA
updated 20 months ago by 45k • written 20 months ago by ▴ 260
1
vote
2
replies
1.2k
views
Which embedding for clustering of cells in single-cell RNAseq?
UMAP PCA ICA clustering tSNE
6 weeks ago by e.r.zakiev ▴ 260
19
votes
7
replies
5.6k
views
When should I NOT apply batch correction for my single-cell RNAseq data?
scRNA-seq batch-correction
updated 21 months ago by 45k • written 21 months ago by ▴ 260
6
votes
5
replies
1.3k
views
barcodes not show up in overrepresented sequences in FASTQC
ribo-seq barcodes
updated 24 months ago by 152k • written 24 months ago by ▴ 260
3
votes
2
replies
785
views
Panther db Reference List
pantherdb enrichment-tests
updated 2.1 years ago by 45k • written 2.1 years ago by ▴ 260
3
votes
1
reply
772
views
Why not use ONLY promoter-bound peaks when testing for enrichment in differentially-bound regions?
ChIP-seq ChIPseeker GO
updated 2.3 years ago by 45k • written 2.3 years ago by ▴ 260
2
votes
5
replies
2.3k
views
msigdbr returns the same genesets for mouse as in for human,
msigdbr
updated 2.3 years ago by 13k • written 2.3 years ago by ▴ 260
12
votes
8
replies
3.3k
views
Sorting a STAR-output bam file with samtools leads to a significant reduction in size of the sorted bam file
samtools STAR
2.3 years ago by e.r.zakiev ▴ 260
0
votes
0
replies
628
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 2.3 years ago by 45k • written 2.3 years ago by ▴ 260
3
votes
1
reply
1.1k
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 2.4 years ago by 45k • written 2.4 years ago by ▴ 260
4
votes
1
reply
892
views
TruSeq Illumina adapters are BLASTed with a high confidence to some genes/terms
RNAseq adapters Truseq BLAST
updated 2.4 years ago by 88k • written 2.4 years ago by ▴ 260
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