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Existence of Bioconductor versus Seurat Software Ecosystems Quantitative Comparison
scran
bluster
scater
scuttle
updated 6 weeks ago by
ATpoint
★ 4.1k • written 6 weeks ago by
Dario Strbenac
★ 1.5k
3
votes
3
replies
402
views
Function 'sexp_as_cholmod_sparse' doesn't exist in the package 'Matrix'
scater
runPCA
updated 6 weeks ago by
alan.ocallaghan
▴ 160 • written 6 weeks ago by
Najla Abassi
• 0
3
votes
3
replies
374
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plotUMAP Gene Set Faceted
scater
updated 3 months ago by
alan.ocallaghan
▴ 160 • written 3 months ago by
Dario Strbenac
★ 1.5k
1
vote
1
reply
249
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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
6.6k
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scater runUMAP fails with error "function 'as_cholmod_sparse' not provided by package 'Matrix'"
runUMAP
scater
Matrix
updated 9 weeks ago by
Hervé Pagès
16k • written 5 months ago by
inzirio
▴ 10
0
votes
3
replies
1.1k
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Is logNormCounts log2 normalised counts as default?
scuttle
scater
updated 8 months ago by
ATpoint
★ 4.1k • written 8 months ago by
Abbi Edwards
• 0
0
votes
6
replies
875
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plotHeatmap annotation error
plotHeatmap
scater
10 months ago
Alina
• 0
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Answer: How to save the DEXSeq results
by
Michael Love
41k
If you look at the output here: https://bioconductor.org/packages/release/bioc/vignettes/DEXSeq/inst/doc/DEXSeq.html#4_Testing_for_differe…
Answer: Method to find pathways different between 2 groups
by
Robert Castelo
★ 3.3k
Hi, regarding how could you combine the result from each tool, one option is using a so-called "ensembl method", for instance, the package …
Answer: Couldn't connect to server while using "pathways"
by
James W. MacDonald
65k
As ATpoint already noted, you should proceed from the assumption that your audience knows nothing about what you are doing, and provide eno…
Answer: Trim/Filter out-of-bounds GRanges
by
Michael Love
41k
https://support.bioconductor.org/p/73432/#73448
Comment: Couldn't connect to server while using "pathways"
by
Michael Love
41k
You've put the tag "DESeq2" which results in an email to the maintainer, me, that I should respond to a post on the support site. Can you …
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Answer: Method to find pathways different between 2 groups
Answer: Method to find pathways different between 2 groups
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: Method to find pathways different between 2 groups
Comment: Trying to use enrichGO
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