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Guidelines for data integration & differential expression for multiple samples/batches #12

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msaland opened this issue Jul 4, 2024 · 0 comments
Open

Guidelines for data integration & differential expression for multiple samples/batches #12

msaland opened this issue Jul 4, 2024 · 0 comments

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@msaland
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msaland commented Jul 4, 2024

Hello,

Just wanted to clarify a couple of things. In the main Seurat vignettes (https://satijalab.org/seurat/articles/seurat5_integration), multiple samples/batches can be integrated together depending on experimental design. Has something similar been considered/implemented for PASTA?

Just wondering about how integration (Harmony, RPCA, etc.) and preparation for DE analysis (i.e., PrepSCTFindMarkers) would look like for polyA analysis.
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