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scater
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Existence of Bioconductor versus Seurat Software Ecosystems Quantitative Comparison
scran
bluster
scater
scuttle
updated 4 weeks ago by
ATpoint
★ 4.0k • written 4 weeks ago by
Dario Strbenac
★ 1.5k
3
votes
3
replies
373
views
Function 'sexp_as_cholmod_sparse' doesn't exist in the package 'Matrix'
scater
runPCA
updated 4 weeks ago by
alan.ocallaghan
▴ 160 • written 4 weeks ago by
Najla Abassi
• 0
3
votes
3
replies
342
views
plotUMAP Gene Set Faceted
scater
updated 12 weeks ago by
alan.ocallaghan
▴ 160 • written 12 weeks ago by
Dario Strbenac
★ 1.5k
1
vote
1
reply
236
views
plotUMAP and ggplotly Cell IDs Display
scater
updated 3 months ago by
alan.ocallaghan
▴ 160 • written 3 months ago by
Dario Strbenac
★ 1.5k
1
vote
7
replies
6.5k
views
scater runUMAP fails with error "function 'as_cholmod_sparse' not provided by package 'Matrix'"
runUMAP
scater
Matrix
updated 8 weeks ago by
Hervé Pagès
16k • written 5 months ago by
inzirio
▴ 10
0
votes
3
replies
1.1k
views
Is logNormCounts log2 normalised counts as default?
scuttle
scater
updated 8 months ago by
ATpoint
★ 4.0k • written 8 months ago by
Abbi Edwards
• 0
0
votes
6
replies
862
views
plotHeatmap annotation error
plotHeatmap
scater
10 months ago
Alina
• 0
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Comment: Why p value inconsistent when using different number of pathway score?
by
Chris
• 0
Hi Robert, if two conditions don't have hundreds of differential express genes ( in some conditions such as peripheral blood Alzheimer vs n…
Answer: Dominance Index for Shotgun Metagenomics Data
by
Leo Lahti
▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
pl23
• 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions
by
Michael Love
41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
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Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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