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scran
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Existence of Bioconductor versus Seurat Software Ecosystems Quantitative Comparison
scran
bluster
scater
scuttle
updated 23 days ago by
ATpoint
★ 4.0k • written 24 days ago by
Dario Strbenac
★ 1.5k
0
votes
3
replies
382
views
scran package: quickCluster and calculateSumFactors parallelization
BiocParallel
scran
updated 3 months ago by
ATpoint
★ 4.0k • written 3 months ago by
qwang178
• 0
1
vote
2
replies
731
views
ScRNAseq analysis scran :: quickcluster Error
scRNAseq
quickcluster
scRNA
scran
4 months ago
ruba-mahmoud
• 0
0
votes
1
reply
340
views
Speeding up large scale scRNAseq analyses in R and improve memory
scran
updated 7 months ago by
ATpoint
★ 4.0k • written 7 months ago by
Maximilian
• 0
0
votes
2
replies
779
views
runPCA in a SingleCellExperiment results ina colMeans error
scran
SingleCellExperiment
10 months ago
Lluís Revilla Sancho
▴ 730
2
votes
2
replies
5.1k
views
scran ScoreMarkers throws a warning
scoreMarkers
scran
updated 10 months ago by
Peter Hickey
▴ 710 • written 10 months ago by
Assa Yeroslaviz
★ 1.5k
2
votes
3
replies
1.3k
views
P-value histogram of testLinearModel is not uniform
smart-seq2
scRNAseq
scran
10 months ago
Lluís Revilla Sancho
▴ 730
7 results • Page
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Comment: FilterByExpr low counts with small sample size
by
Gordon Smyth
50k
As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…
Comment: Batch correction and repeated measures
by
Gordon Smyth
50k
In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…
Comment: Methylation Analysis experiment design using Limma
by
Gordon Smyth
50k
I don't analyse methylation arrays so cannot advise on specific limma settings for that type of data. Please follow the advice of the methy…
Comment: Light difference when using coef vs omit a group when compare 3 groups.
by
Chris
• 0
Hi Gordon, thank you so much for further guidance! I discussed this issue with psychology doctor who treat Alzheimer patients and they don'…
Comment: Single-Cell Data Simulation from Bulk RNA-seq
by
wichaidi
• 0
Hi - I am wondering what you decided to do. I am currently in a similar condition where I need to create a toy scRNAseq data from bulk.
Votes
Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
DESeq2 variance transformation error and plot dispersion Estimate
A: DESeq2 variance transformation error and plot dispersion Estimate
ensembl to hgnc symbols creates duplicates
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