Discussions

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  Should I use the RNA assay or SCT assay for DE with pseudobulk?

  Zack-G-123 asked Jan 25, 2024 in Q&A · Unanswered

  

  

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  pre-B cell and B cell progenitor annotation

  Egu333 asked Sep 9, 2024 in Q&A · Unanswered

  

  

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  Viral load analysis in host organism cells

  tkapello started Aug 22, 2024 in General

  

  

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  disdinguish batch effect from real biological difference

  sunshx-bioinfo started Aug 27, 2024 in General

  

  

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  Question about GSEA. How to rank?

  Sirin24 started Aug 31, 2024 in General

  

  

  

  

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  help me find SeuratDisk

  145megha asked Sep 2, 2024 in Q&A · Answered

  

  

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  Behaviour of MapQuery for multimodal query using multimodal reference

  jasonyklam asked Aug 29, 2024 in Q&A · Unanswered

  

  

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  LoadNanostring()/ReadNanostring() Updates

  swbioinf started Aug 26, 2024 in General

  

  

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  Integration question, warning in FindAllMarkers() function but it still produces a heatmap

  ghost started Jul 15, 2024 in General · Closed

  

  

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  How to get subset of a Seurat object based on metadata?

  Sunyp-IM asked Mar 29, 2023 in Q&A · Unanswered

  

  

  

  

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  Data used by FeaturePlot when blend=TRUE

  alivernois asked Aug 22, 2024 in Q&A · Unanswered

  

  

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  Interaction effects in Seurat?

  meliseedwards asked Aug 21, 2024 in Q&A · Unanswered

  

  

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  sorting DEGs in the dotplot for every column

  BehzadMoumbeini asked Aug 20, 2024 in Q&A · Unanswered

  

  

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  Pseudo time analysis with monocle3 of the data with Day 1 and Day 2 samples for Control and Disease.

  SMP7UC started Aug 20, 2024 in General

  

  

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  Integration only returns 2000 features

  YunnnQin started Jun 2, 2023 in General

  

  

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  BuildNicheAssay; best practice for optimal usage

  KoichiHashikawa started Jun 24, 2024 in General

  

  

  

  

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  FindMarkers and complex experimental designs.

  nadschro asked Aug 15, 2024 in Q&A · Unanswered

  

  

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  Export fragments data as csv from fragments object

  KRhoDomb asked Aug 15, 2024 in Q&A · Unanswered

  

  

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  Storing a custom dimensional reduction Seurat v5

  mrmxhmd asked Apr 4, 2024 in Q&A · Unanswered

  

  

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  Difference between scTransform/dimension reduction on merged object vs. individual

  NickOGrady asked Aug 12, 2024 in Q&A · Unanswered

  

  

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  error in "SelectIntegrationFeatures" function

  morikazu1209 asked Aug 13, 2024 in Q&A · Unanswered

  

  

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  Run sctransform on the whole object or per cell type

  anglixue started Aug 12, 2024 in General

  

  

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  Error in getGlobalsAndPackages. This exceeds the maximum allowed size of future.globals.maxSize

  royfrancis started Aug 7, 2024 in General

  

  

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  Is it possible to overlay features onto a single UMAP plot? Instead of getting patchworked plots?

  donov256 asked Aug 6, 2024 in Q&A · Unanswered

  

  

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  Correct method for performing Differential expression across samples

  Tommy0398 asked Jun 28, 2022 in Q&A · Unanswered

  

  

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