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infercnv error at STEP 18 - file descriptor is too large for select()
R 10x singlecell infercnv
4 weeks ago by yura.grabovska ▴ 870
0
votes
2
replies
2.2k
views
DNA copy number blacklist for excluding common unreliable regions
blacklist copy number
5 weeks ago by yura.grabovska ▴ 870
1
vote
2
replies
780
views
Comparing sets of genes for similarity
R jaccard genes marker clustering
5 months ago by yura.grabovska ▴ 870
0
votes
0
replies
570
views
cNMF missing spectra iterations - what am I doing wrong?
cNMF python single-cell
8 months ago by yura.grabovska ▴ 870
3
votes
1
reply
678
views
Current best practice for alignment and quantification for downstream analysis in DESeq2
R DESeq2 alignment
updated 8 months ago by 105k • written 8 months ago by ▴ 870
0
votes
3
replies
1.4k
views
After doublet detection in 10x scRNA-Seq data, there is still evidence of doublets
R DoubletFinder Seurat scRNA
5 weeks ago by yura.grabovska ▴ 870
0
votes
0
replies
565
views
Seurat/Signac multiome analysis filtering on nCounts instead of nFeatures
10x Signac Seurat multiome
11 months ago by yura.grabovska ▴ 870
8
votes
3
replies
1.4k
views
What's going on with Ensembl?
biomaRt ensembl
updated 12 months ago by ▴ 170 • written 12 months ago by ▴ 870
2
votes
1
reply
1.2k
views
Seurat Xenium QC
R Xenium spatial Seurat
updated 13 months ago by 6.5k • written 13 months ago by ▴ 870
0
votes
0
replies
458
views
CODEX/Phenocycler -> QuPath -> Seurat pipeline basic help needed
QuPath CODEX Seurat Phenocycler
13 months ago by yura.grabovska ▴ 870
2
votes
1
reply
1.7k
views
Understanding behaviour of SCTransform in Seurat
Seurat scRNASeq normalization
updated 13 months ago by • 0 • written 18 months ago by ▴ 870
0
votes
6
replies
1.3k
views
Best practice for gene ontology/pathway/geneset enrichment in 10x data
R Seurat scRNA
updated 13 months ago by ★ 19k • written 13 months ago by ▴ 870
2
votes
6
replies
1.3k
views
Selecting top signature score from signatures with different distributions
R classification distributions
updated 15 months ago by 5.2k • written 15 months ago by ▴ 870
0
votes
5
replies
1.1k
views
Suggestions for resource for running R training
R environments training
updated 16 months ago by ★ 2.1k • written 16 months ago by ▴ 870
0
votes
0
replies
520
views
Clustering single-cell CNV data
R clustering infercnv CNV scRNA
16 months ago by yura.grabovska ▴ 870
0
votes
0
replies
464
views
Interpreting cNMF with 2 equivalent best ranks
python cNMF
16 months ago by yura.grabovska ▴ 870
0
votes
3
replies
1.3k
views
QC filtering for 10x Single Cell Gene Expression Flex Fixed RNA Profiling
10x Seurat scRNA-Seq
17 months ago by yura.grabovska ▴ 870
0
votes
1
reply
2.7k
views
Seurat v5 and how to correctly integrate across multiple experiments
Seurat scRNA R
updated 18 months ago by ★ 3.1k • written 18 months ago by ▴ 870
1
vote
1
reply
1.0k
views
Dealing with very large gene-lists in GSEA
R fgsea GSEA
updated 2.6 years ago by ★ 1.9k • written 2.6 years ago by ▴ 870
0
votes
0
replies
714
views
How to format matrix with negative values for NMF in R
nmf R matrix
2.7 years ago by yura.grabovska ▴ 870
0
votes
0
replies
737
views
Most appropriate method to analysing multi-plate single concentration drug screening
statistics screening drug
3.0 years ago by yura.grabovska ▴ 870
0
votes
0
replies
623
views
SinEx DB 2.0 local version
SEG exons genes
3.1 years ago by yura.grabovska ▴ 870
0
votes
0
replies
507
views
Annotate peptide sequence with source exon
protein R biomaRt
updated 3.2 years ago by 154k • written 3.2 years ago by ▴ 870
7
votes
2
replies
2.4k
views
Retrieve and count variable barcodes from pooled sequencing fastq
NGS fastq barcodes
updated 4.0 years ago by 8.7k • written 4.0 years ago by ▴ 870
1
vote
2
replies
1.1k
views
Automatically annotate drugs for their targets
drugs annotation
updated 4.0 years ago by ★ 2.2k • written 4.0 years ago by ▴ 870
6
votes
2
replies
1.6k
views
Is a paired Wilcoxon test appropriate for analysis of CRISPR gene knock-out screen counts?
R gene sequencing
updated 5.1 years ago by 90k • written 5.1 years ago by ▴ 870
0
votes
4
replies
6.2k
views
Using limma to find differentially methylated probes across clusters
R methylation limma contrasts
8.4 years ago by yura.grabovska ▴ 870
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