Showing : SpatialExperiment • reset
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Convert SpatialExperiment Object to Seurat Object
scuttle scater seurat SpatialExperiment
3.0 years ago cathalgking ▴ 10
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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
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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
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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
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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
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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
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Basic import of seqFISH from Spatial Genomics genePS into SpatialExperiment
seqFISH SpatialExperiment
17 months ago Matthew Thornton ▴ 390
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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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cbind for multiple SpatialExperiment takes so much time
SpatialExperiment SingleCellExperiment
15 months ago Ibrahim • 0
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Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by ja569116 • 0
Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …
Answer: limpa analysis advice by Gordon Smyth 53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma by Gordon Smyth 53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
I updated the above answer today.
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…
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Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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