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scuttle
•
reset
2
votes
5
replies
680
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scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data
scuttle
updated 5 weeks ago by
Aaron Lun
★ 28k • written 5 weeks ago by
Adam
▴ 10
2
votes
1
reply
593
views
Existence of Bioconductor versus Seurat Software Ecosystems Quantitative Comparison
scran
bluster
scater
scuttle
updated 9 months ago by
ATpoint
★ 4.6k • written 9 months ago by
Dario Strbenac
★ 1.5k
0
votes
3
replies
1.6k
views
Is logNormCounts log2 normalised counts as default?
scuttle
scater
updated 16 months ago by
ATpoint
★ 4.6k • written 16 months ago by
Abbi Edwards
• 0
1
vote
0
replies
2.0k
views
Convert SpatialExperiment Object to Seurat Object
scuttle
scater
seurat
SpatialExperiment
23 months ago
cathalgking
▴ 10
0
votes
1
reply
969
views
cell_count column in SpatialExperiment Object
scuttle
scater
SpatialExperiment
updated 23 months ago by
alan.ocallaghan
▴ 160 • written 2.0 years ago by
cathalgking
▴ 10
2
votes
2
replies
1.6k
views
scuttle:: librarySizeFactors returning non-finite values
normalizeCounts
scran
librarySizeFactors
scuttle
scRNAseq
2.9 years ago
behr201
• 0
3
votes
3
replies
2.1k
views
Ensuring reproducibility in BiocParallel SingleCellExperiment workflows
scater
SingleCellExperiment
BiocParallel
scuttle
scran
3.2 years ago
enricoferrero
▴ 660
4
votes
5
replies
3.0k
views
scuttle::aggregateAcrossCells() crashes R on large SingleCellExperiment
scran
SingleCellExperiment
scuttle
scater
updated 4.0 years ago by
Aaron Lun
★ 28k • written 4.0 years ago by
enricoferrero
▴ 660
5
votes
4
replies
7.2k
views
scRNA-seq pseudo-bulk differential expression analysis with pseudobulkDGE()
scran
scater
scuttle
updated 4.4 years ago by
Aaron Lun
★ 28k • written 4.4 years ago by
enricoferrero
▴ 660
9 results • Page
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Comment: org.Hs.eg.db issue
by
k.panov
• 0
installed R on another PC, works perfectly. ergo, problem outside of R probably..... :-(
Comment: SingleR Label.Ont
by
nipisik941
• 0
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Comment: MBDseq analysis using qsea package
by
Lukas
▴ 20
Hi, I checked in with Matthias and here is his response: You need to indicate "samples": "The indices of the samples for which individu…
Comment: DESeq2 analysis with transcript counts
by
sindhuri
• 0
Thank you for the response. Currently I am using the R studio for analysis and Im running DESeq2 for analysis of the **transcript counts.ts…
Comment: Paired analysis in proteomics data for DE while interested in only a particular
by
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• 0
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Votes
Answer: Issue carrying out DiffBind Analysis at a predefined peak set
Answer: Differential variability modelling with vst() expression
Answer: Differential variability modelling with vst() expression
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
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