Showing : SpatialExperiment • reset
3
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SingleCellExperiment convenience function for metadata+expression?
SpatialExperiment SingleCellExperiment SpatialFeatureExperiment
updated 10 months ago by ▴ 40 • written 12 months ago by • 0
0
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0
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406
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cbind for multiple SpatialExperiment takes so much time
SpatialExperiment SingleCellExperiment
15 months ago Ibrahim • 0
0
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1
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726
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Basic import of seqFISH from Spatial Genomics genePS into SpatialExperiment
seqFISH SpatialExperiment
17 months ago Matthew Thornton ▴ 390
0
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0
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1.0k
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Job: Postdoc+PhD position: Spatial & Single-Cell Computational Immunogenomics for Cancer Diagnosis
JobPosting CuratedAtlasQueryR MoleculeExperiment SingleCellExperiment SpatialExperiment
19 months ago Stefano Mangiola ▴ 40
0
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0
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641
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News: Interested in the analysis of Spatial Omics data?
tidySpatialExperiment SpatialExperiment MoleculeExperiment
21 months ago info ▴ 10
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0
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1.1k
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Job: Bioinformatics Spatial Omics and Proteomics Postdoc (Research Officer / Senior Research Officer) at WEHI (Melbourne, Australia)
Proteomics JobPosting SingleCell Spatial SpatialExperiment
22 months ago Peter Hickey ▴ 760
0
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0
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1.3k
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Job: Bioinformatics Spatial Omics Postdoc (Research Officer / Senior Research Officer) at WEHI (Melbourne, Australia)
SpatialExperiment JobPosting
2.6 years ago Peter Hickey ▴ 760
1
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0
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2.9k
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Convert SpatialExperiment Object to Seurat Object
scuttle scater seurat SpatialExperiment
3.0 years ago cathalgking ▴ 10
0
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1
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1.4k
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cell_count column in SpatialExperiment Object
scuttle scater SpatialExperiment
updated 3.0 years ago by ▴ 160 • written 3.0 years ago by ▴ 10
9 results • Page 1 of 1
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Answer: When to use edgeR or limma by James W. MacDonald 68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
The short answer is that limpa reads standard feature-level intensities from Spectronaut or other quantifications tools. limpa is designed …
Comment: Question about the filterByExpr function inputs in edgeR by mohammedtoufiq91 ▴ 10
@gordonsmyth Noted, thank you very much.
Comment: Question about the filterByExpr function inputs in edgeR by Gordon Smyth 53k
Regarding edgeR v4 filtering, I didn't mention anything about a minimum count of 10 but rather said "a positive count". So a minimalistic f…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by JKim • 0
Hi Emily, He left some comments regarding normalization. Here is the relevant quote: > The EList object produced by dpcQuant(), containi…
Votes
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
Comment: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
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