Bioconductor Msqrob2

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msqrob2

updated 2.3 years ago by Laurent Gatto 1.6k • written 2.3 years ago by richard.naylor-2 • 0

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msqrob2 ProteomicsWorkflow proteomics

updated 3.3 years ago by Gordon Smyth 53k • written 3.4 years ago by Jane ▴ 10

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Answer: DESeq2 interactions by prominentmirabel • 0

Good experimental setup! For HP vs CNP, try results(dds_int, contrast=list("pollutionpolluted", "temphot", "pollutionpolluted.temphot")). T…

Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi by ReinholdGaylord99 • 0

Thank you so much! https://www.nature.com/articles/s41467-021-25960-2

Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by Gordon Smyth 53k

I'm not sure that I understand. You have a dataset that, even after pseudo-bulking, still has 6000 samples? That is surprising. Retaining …

Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by abaed • 0

Hello again @gordonsmyth, I've now applied the analysis using a more detailed annotation of cell types/clusters, which includes about 100 …

Answer: Sharing a collection of datasets in ExperimentHub by shepherl 4.2k

107 packages would be a lot! It is certainly possible (and recommended) to implement one package that utilizes ExperimentHub for controlli…

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Comment: readDNAStringSet with non DNA characters

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